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ORCIDJournal of Open Source Software, Volume 8
Volume 8, Number 81, January 2023
- Tristan Konolige
:
City2BA: Tools for creating synthetic bundle adjustment problems. 3125 - Grégoire Hugues Cattan, César Mendoza:
Tagging Latency Estimator: A Standalone Software for Estimating Latency of Event-Related Potentials in P300-based Brain-Computer Interfaces. 4114 - Henrik Nicolay Topnes Finsberg, Ilsbeth Gerarda Maria van Herck, Cécile Daversin-Catty, Hermenegild Arevalo, Samuel T. Wall:
simcardems: A FEniCS-based cardiac electro-mechanics solver. 4753 - Valentin Christiaens, Carlos Alberto Gomez Gonzalez, Ralf Farkas, Carl-Henrik Dahlqvist, Evert Nasedkin, Julien Milli, Olivier Absil, Henry Ngo, Carles Cantero, Alan Rainot, Iain Hammond, Markus J. Bonse, Faustine Cantalloube, Arthur Vigan, Vijay Phanindra Srikanth Kompella, Paul J. Hancock:
VIP: A Python package for high-contrast imaging. 4774 - Lorenzo Pizzuti, Ippocratis D. Saltas, Andrea Biviano, Gary Mamon, Luca Amendola:
MG-MAMPOSSt, a Fortran code to test gravity at galaxy-cluster scales. 4800 - Szabolcs Horvát, Jakub Podkalicki, Gábor Csárdi, Tamás Nepusz, Vincent A. Traag, Fabio Zanini, Daniel Noom:
IGraph/M: graph theory and network analysis for Mathematica. 4899 - Kadeem Dennis, Michael Marxen, Kamran Siddiqui:
PIVC: A C/C++ Program for Particle Image Velocimetry Vector Computation. 3736 - James W. Nightingale, Aristeidis Amvrosiadis, Richard G. Hayes, Qiuhan He, Amy Etherington, XiaoYue Cao, Shaun Cole, Jonathan Frawley, Carlos S. Frenk, Sam Lange, Ran Li, Richard J. Massey, Mattia Negrello, Andrew Robertson:
PyAutoGalaxy: Open-Source Multiwavelength Galaxy Structure & Morphology. 4475 - Rich Townsend, Aaron Lopez:
MSG: A software package for interpolating stellar spectra in pre-calculated grids. 4602 - Joseph H. P. Jackson, Ian Harry, Coleman Krawczyk:
PyFPT: A Python package for first-passage times. 4607 - Lluís Jofre, Ahmed Abdellatif, Guillermo Oyarzun:
RHEA: an open-source Reproducible Hybrid-architecture flow solver Engineered for Academia. 4637 - Erik Poppleton, Michael Matthies, Debesh Mandal, Flavio Romano, Petr Sulc, Lorenzo Rovigatti:
oxDNA: coarse-grained simulations of nucleic acids made simple. 4693 - Ayoub Malek:
Spafe: Simplified python audio features extraction. 4739 - Ian Frederick Vigogne Goodbody Hunter:
GNOLL: Efficient Multi-Lingual Software for Real-World Dice Notation and Extensions. 4816 - Anna Jenul, Stefan Schrunner:
UBayFS: An R Package for User Guided Feature Selection. 4848 - Ryan J. MacDonald:
POSEIDON: A Multidimensional Atmospheric Retrieval Code for Exoplanet Spectra. 4873 - Martin Lackner, Peter Regner, Benjamin Krenn:
abcvoting: A Python package for approval-based multi-winner voting rules. 4880 - Stephen J. Beckett, Freyja A. Brandel-Tanis, Quan Nguyen, Aroon T. Chande, Lavanya Rishishwar, Clio Andris, Joshua S. Weitz:
localcovid19now: processing and mapping COVID-19 case data at subnational scales. 4898 - Edward Antonian, Gareth W. Peters, Michael J. Chantler:
PyKronecker: A Python Library for the Efficient Manipulation of Kronecker Products and Related Structures. 4900 - Dennis Gläser, Timo Koch, Sören Peters, Sven Marcus, Bernd Flemisch:
fieldcompare: A Python package for regression testing simulation results. 4905 - Gabriel Mariano Marcelino:
PyNGHam: A Python library of the NGHam protocol. 4915 - Christopher Popp:
BellDiagonalQudits: A package for entanglement analyses of mixed maximally entangled qudits. 4924 - Alex Golts, Moshe Raboh, Yoel Shoshan, Sagi Polaczek, Simona Rabinovici-Cohen, Efrat Hexter:
FuseMedML: a framework for accelerated discovery in machine learning based biomedicine. 4943 - Romain Fernandez, Cédric Moisy:
FijiRelax: Fast and noise-corrected estimation of MRI relaxation maps in 3D + t. 4981 - David Shean, J. P. Swinski, Ben Smith, Tyler Clark Sutterley, Scott Henderson, Carlos Ugarte, Eric Lidwa, Thomas Neumann:
SlideRule: Enabling rapid, scalable, open science for the NASA ICESat-2 mission and beyond. 4982 - David Schoch:
signnet: An R package for analyzing signed networks. 4987 - Niels A. Wouda, Leon Lan:
ALNS: a Python implementation of the adaptive large neighbourhood search metaheuristic. 5028 - Simon Nolte:
spiro: An R package for analyzing data from cardiopulmonary exercise testing. 5089
Volume 8, Number 82, February 2023
- Niek Beckers, Olger Siebinga, Joris Giltay, André van der Kraan:
JOAN: a framework for human-automated vehicle interaction experiments in a virtual reality driving simulator. 4250 - Tyler H. Chang, Stefan M. Wild:
ParMOO: A Python library for parallel multiobjective simulation optimization. 4468 - Beatrice Marti, Tobias Siegfried:
riversCentralAsia: An R package to support data pre- and postprocessing for hydrological modelling with RS MINERVE. 4805 - Tomasz Tarkowski:
Quilë: C++ genetic algorithms scientific library. 4902 - Hilaire Drouineau, Benjamin Planque, Christian Mullon:
RCaNmodel: An R package for Chance and Necessity modelling. 4955 - Alexander G. Squires, David O. Scanlon, Benjamin J. Morgan:
py-sc-fermi: self-consistent Fermi energies and defect concentrations from electronic structure calculations. 4962 - Ryan R. Curtin, Marcus Edel, Omar Shrit, Shubham Agrawal, Suryoday Basak, James Joseph Balamuta, Ryan Birmingham, Kartik Dutt, Dirk Eddelbuettel, Rishabh Garg, Shikhar Jaiswal, Aakash Kaushik, Sangyeon Kim, Anjishnu Mukherjee, Nanubala Gnana Sai, Nippun Sharma, Yashwant Singh Parihar, Roshan Swain, Conrad Sanderson:
mlpack 4: a fast, header-only C++ machine learning library. 5026 - Jakob Dürrwächter, Thomas Kuhn, Fabian Meyer, Andrea Beck, Claus-Dieter Munz:
PoUnce: A framework for automatized uncertainty quantification simulations on high-performance clusters. 4683 - Fatma Sevinç Kurnaz, Peter Filzmoser:
enetLTS: Robust and Sparse Methods for High Dimensional Linear, Binary, and Multinomial Regression. 4773 - Philip Sandwell, Benedict Winchester, Hamish Beath, Jenny Nelson:
CLOVER: A modelling framework for sustainable community-scale energy systems. 4799 - Olivier Chabot, Louis Brillon:
guitarsounds: A Python package to visualize harmonic sounds for musical instrument design. 4878 - Sermad Abbas, Barbara Brune, Roland Fried:
robnptests - An R package for robust two-sample location and dispersion tests. 4947 - Arne Küderle, Robert Richer, Raul C. Sîmpetru, Bjoern M. Eskofier:
tpcp: Tiny Pipelines for Complex Problems - A set of framework independent helpers for algorithms development and evaluation. 4953 - Thomas E. Riley, Devarshi Choudhury, Tuomo E. Salmi, Serena Vinciguerra, Yves Kini, Bas Dorsman, Anna L. Watts, Daniela Huppenkothen, Sebastien Guillot:
X-PSI: A Python package for neutron star X-ray pulse simulation and inference. 4977 - Thomas M. Bury:
ewstools: A Python package for early warning signals of bifurcations in time series data. 5038 - Tony M. Abou Zeidan, Mark Rempel:
GeoHexViz: A Python package for the visualizing hexagonally binned geospatial data. 5073 - Mark Heckmann, Viv Burr, Nigel King:
OpenRepGrid.ic: A software for Interpretive Clustering. 3292 - Benjamin Edward Bolling:
Computer-Aided Generation of N-shift RWS. 3431 - David McCoy, Alan E. Hubbard, Mark J. van der Laan:
CVtreeMLE: Efficient Estimation of Mixed Exposures using Data Adaptive Decision Trees and Cross-Validated Targeted Maximum Likelihood Estimation in R. 4181
Volume 8, Number 83, March 2023
- Dazhong Wu, Jian Hua, Feng Xu:
pydynpd: A Python package for dynamic panel model. 4416 - Daniel Schalk, Verena S. Hoffmann, Bernd Bischl, Ulrich Mansmann:
dsBinVal: Conducting distributed ROC analysis using DataSHIELD. 4545 - George Dan Miron, Allan M. M. Leal, S. V. Dmytrieva, Dmitrii A. Kulik:
ThermoFun: A C++/Python library for computing standard thermodynamic properties of substances and reactions across wide ranges of temperatures and pressures. 4624 - Shreyas Sunil Gaikwad, Laurent Hascoët, Sri Hari Krishna Narayanan, Liz Curry-Logan, Ralf Greve, Patrick Heimbach:
SICOPOLIS-AD v2: tangent linear and adjoint modeling framework for ice sheet modeling enabled by automatic differentiation tool Tapenade. 4679 - Skipton N. C. Woolley, Scott D. Foster:
The ppmData R-package for setting up spatial point process models. 4771 - Zequn Jia, Yantao Sun, Qiang Liu:
OPSDN: an enhanced SDN simulation framework for OPNET Modeler. 4815 - Babak Shaban, Maria Mar del Quiroga, Robert Turnbull, Edoardo Tescari, Kim-Anh Lê Cao, Heroen Verbruggen:
MetaGenePipe: An Automated, Portable Pipeline for Contig-based Functional and Taxonomic Analysis. 4851 - José Dias Neto, Guilherme P. Castelão:
lidarwind: A Python package for retrieving wind profiles from Doppler lidar observations. 4852 - Thomas Hilder, Daniele Fasano, Francesco Bollati, Jacob Vandenberg:
Wakeflow: A Python package for semi-analytic models of planetary wakes. 4863 - Félix Olart, Thibault Oudart, Olivier Bertrand, Mehdi Pierre Daou:
NIMPHS: Numerous Instruments to Manipulate and Post-process Hydraulic Simulations. 4868 - Bruno Lebon:
directChillFoam: an OpenFOAM application for direct-chill casting. 4871 - Jérémy Lerond, Aowabin Rahman, Jian Zhang, Michael Rosenberg:
Copper: a performance curve generator for building energy simulation. 4876 - Margaret Eminizer, Sam Tabrisky, Amir Sharif-Zadeh, Christopher DiMarco, Jacob M. Diamond, K. T. Ramesh, Todd C. Hufnagel, Tyrel M. McQueen, David Elbert:
OpenMSIStream: A Python package for facilitating integration of streaming data in diverse laboratory environments. 4896 - Dirk Eilander, Hélène Boisgontier, Laurène J. E. Bouaziz, Joost Buitink, Anaïs Couasnon, Brendan Dalmijn, Mark Hegnauer, Tjalling de Jong, Sibren Loos, Indra Marth, Willem van Verseveld:
HydroMT: Automated and reproducible model building and analysis. 4897 - Maximilian Denninger, Dominik Winkelbauer, Martin Sundermeyer, Wout Boerdijk, Markus Knauer, Klaus H. Strobl, Matthias Humt, Rudolph Triebel:
BlenderProc2: A Procedural Pipeline for Photorealistic Rendering. 4901 - Ajayrama Kumaraswamy, Georg Raiser, C. Giovanni Galizia:
PyView: A general purpose tool for analyzing calcium imaging data. 4936 - Hao Yin, Gianluca Cusatis:
RingsPy: A Python package for Voronoi mesh generation of cellular solids with radial growth pattern. 4945 - Emily Bourne, Yaman Güçlü, Said Hadjout, Ahmed Ratnani:
Pyccel: a Python-to-X transpiler for scientific high-performance computing. 4991 - Barnaby Dobson, Leyang Liu, Ana Mijic:
Water Systems Integrated Modelling framework, WSIMOD: A Python package for integrated modelling of water quality and quantity across the water cycle. 4996 - Maximilian Bittens, Robert L. Gates:
DistributedSparseGrids.jl: A Julia library implementing an Adaptive Sparse Grid collocation method. 5003 - Kaze W. K. Wong, Marylou Gabrié, Daniel Foreman-Mackey:
flowMC: Normalizing flow enhanced sampling package for probabilistic inference in JAX. 5021 - Luis Scoccola, Alexander Rolle:
Persistable: persistent and stable clustering. 5022 - Koen Van Daele, Tinne Cahy, Wim De Clercq, Jonas Geuens, Bram Goessens, Jonathan Piraux, Bart Saelen, Maarten Taeymans, Cedrik Vanderhaegen:
Atramhasis: An online SKOS vocabulary editor. 5040 - Iker Rivas-González, Lars Nørvang Andersen, Asger Hobolth:
PhaseTypeR: an R package for phase-type distributions in population genetics. 5054 - Mitchell Pound, Spencer Clemens, Tyler Brough, Pedram Jahangiry, Janette Goodridge:
Bruno: A Julia package for simulation, financial asset pricing and delta hedging. 5056 - Ayush Pandey, William Poole, Anandh Swaminathan, Victoria Hsiao, Richard M. Murray:
Fast and flexible simulation and parameter estimation for synthetic biology using bioscrape. 5057 - E. Theodore L. Omtzigt, James Quinlan:
Universal Numbers Library: Multi-format Variable Precision Arithmetic Library. 5072 - Jindra Lacko:
RCzechia: Spatial Objects of the Czech Republic. 5082 - Karl Otness, Donsub Rim:
adrt: approximate discrete Radon transform for Python. 5083 - Amedeo Ceglia, Felipe Verdugo, Mickaël Begon:
Biosiglive: an Open-Source Python Package for Real-time Biosignal Processing. 5091 - Claudio Moroni, Pietro Monticone:
MultilayerGraphs.jl: Multilayer Network Science in Julia. 5116 - Benjamin A. Storer, Hussein Aluie:
FlowSieve: A Coarse-Graining Utility for Geophysical Flows on the Sphere. 4277 - Nicolas Raillard, Simon Chabot, Christophe Maisondieu, David Darbynian, Gregory F. Payne, Louis Papillon:
RESOURCECODE: A Python package for statistical analysis of sea-state hindcast data. 4366 - Scott Sievert, Robert D. Nowak, Timothy T. Rogers:
Efficiently Learning Relative Similarity Embeddings with Crowdsourcing. 4517 - Linus Seelinger, Vivian Cheng-Seelinger, Andrew D. Davis, Matthew D. Parno, Anne Reinarz:
UM-Bridge: Uncertainty quantification and modeling bridge. 4748 - Connor Barnes, Luke Henke, Lorena Henke, Ivan Krukov, Owen Hildreth:
SwiftVISA: Controlling Instrumentation with a Swift-based Implementation of the VISA Communication Protocol. 4752 - Christof Obertscheider, Ewald Fauster:
RTMsim - A Julia module for filling simulations in Resin Transfer Moulding with the Finite Area Method. 4763 - Jesse D. Smith, Marcus L. Young:
APAV: An Open-Source Python Package for Mass Spectrum Analysis in Atom Probe Tomography. 4862 - Hongyang Zhou:
Vlasiator.jl: A Julia package for processing Vlasiator data. 4906 - Jessica Scheick, Wei Ji Leong, Kelsey Bisson, Anthony Arendt, Shashank Bhushan, Zachary Fair, Norland Raphael Hagen, Scott Henderson, Friedrich Knuth, Tian Li, Zheng Liu, Romina Piunno, Nitin Ravinder, Landung Setiawan, Tyler Clark Sutterley, J. P. Swinski, Anubhav:
icepyx: querying, obtaining, analyzing, and manipulating ICESat-2 datasets. 4912 - Gianluca Iori, Gianluigi Crimi, Enrico Schileo, Fulvia Taddei, Giulia Fraterrigo, Martino Pani:
Ciclope: micro Computed Tomography to Finite Elements. 4952 - Felix Nitsch, Christoph Schimeczek, Ulrich J. Frey, Benjamin Fuchs:
FAME-Io: Configuration tools for complex agent-based simulations. 4958 - J. Michael Burgess:
ronswanson: Building Table Models for 3ML. 4969 - Aashish N. Patel, Andrew R. Sedler, Jingya Huang, Chethan Pandarinath, Vikash Gilja:
High-performance neural population dynamics modeling enabled by scalable computational infrastructure. 5023 - Panagiotis Anagnostou, Sotiris K. Tasoulis, Vassilis P. Plagianakos, Dimitris K. Tasoulis:
HiPart: Hierarchical Divisive Clustering Toolbox. 5024 - Christoph Schimeczek, Kristina Nienhaus, Ulrich J. Frey, Evelyn Sperber, Seyedfarzad Sarfarazi, Felix Nitsch, Johannes Kochems, Aboubakr Achraf El Ghazi:
AMIRIS: Agent-based Market model for the Investigation of Renewable and Integrated energy Systems. 5041 - Utkarsh Sharma, Qingyuan Zhang, Jordan Dennis, Benjamin J. S. Pope:
ticktack: A Python package for carbon box modelling. 5084 - Christoph Schimeczek, Marc Deissenroth-Uhrig, Ulrich J. Frey, Benjamin Fuchs, Aboubakr Achraf El Ghazi, Manuel Wetzel, Kristina Nienhaus:
FAME-Core: An open Framework for distributed Agent-based Modelling of Energy systems. 5087 - Mohamed Masoud, Farfalla Hu, Sergey M. Plis:
Brainchop: In-browser MRI volumetric segmentation and rendering. 5098 - Song-min Yu, Zhanyi Hou:
Melodie: Agent-based Modeling in Python. 5100 - Andrew Rohskopf, C. Sievers, Nicholas Lubbers, Mary Alice Cusentnio, James Goff, Jan Janssen, Megan McCarthy, David Montes Oca de Zapiain, Svetoslav Nikolov, Khachik Sargsyan, Dionysios Sema, Ember Sikorski, Logan Williams, Aidan P. Thompson, Mitchell A. Wood:
FitSNAP: Atomistic machine learning with LAMMPS. 5118 - Yingjie Li, Veronica F. Frans, Yongze Song, Meng Cai, Yuqian Zhang, Jianguo Liu:
SDGdetector: an R-based text mining tool for quantifying efforts toward Sustainable Development Goals. 5124 - Matthew Caudill:
Openseize: A digital signal processing package for large EEG datasets in Python. 5126 - Eva Maxfield Brown, To Huynh, Nicholas Weber:
Speakerbox: Few-Shot Learning for Speaker Identification with Transformers. 5132 - Meghna Thomas, Tyler Trimble, Lina Sela:
VisWaterNet: A Python package for visualization of water distribution networks. 5139 - Trygve Magnus Ræder:
Dark-field X-ray microscopy visualization. 5177 - Orion Archer Cohen, Hugo MacDermott-Opeskin, Lauren Lee, Tingzheng Hou, Kara D. Fong, Ryan Kingsbury, Jingyang Wang, Kristin A. Persson:
SolvationAnalysis: A Python toolkit for understanding liquid solvation structure in classical molecular dynamics simulations. 5183 - Martin Bernstorff, Kenneth C. Enevoldsen, Jakob Damgaard, Andreas Danielsen, Lasse Hansen:
timeseriesflattener: A Python package for summarizing features from (medical) time series. 5197 - Romain Sacchi:
unfold: removing the barriers to sharing and reproducing prospective life-cycle assessment databases. 5198 - Fritz Lekschas:
Regl-Scatterplot: A Scalable Interactive JavaScript-based Scatter Plot Library. 5275 - Semidán Robaina-Estévez, José M. González:
Pynteny: a Python package to perform synteny-aware, profile HMM-based searches in sequence databases. 5289 - Rex Parsons, Robin D. Blythe, Adrian G. Barnett, Susanna M. Cramb, Steven M. McPhail:
predictNMB: An R package to estimate if or when a clinical prediction model is worthwhile. 5328 - Eryk J. Walczak:
PostcodesioR: An R package for UK geocoding. 5334 - David Nicholson:
Crowsetta: A Python tool to work with any format for annotating animal vocalizations and bioacoustics data. 5338
Volume 8, Number 84, April 2023
- Morten Ledum, Manuel Carrer, Samiran Sen, Xinmeng Li, Michele Cascella, Sigbjørn Løland Bore:
HylleraasMD: Massively parallel hybrid particle-field molecular dynamics in Python. 4149 - Daniel Williams, John Veitch, Maria Luisa Chiofalo, Patricia Schmidt, Rhiannon P. Udall, Avi Vajpeji, Charlie Hoy:
Asimov: A framework for coordinating parameter estimation workflows. 4170 - Jeremiah Corrado, Jake J. Harmon, Milan M. Ilic, Branislav M. Notaros:
FEM_2D: A Rust Package for 2D Finite Element Method Computations with Extensive Support for hp-refinement. 4172
Volume 8, Number 85, May 2023
- Vlad Stefan Barbu, Florian Lecocq, Corentin Lothodé, Nicolas Vergne:
smmR: A Semi-Markov R package. 4365 - Kauê de Sousa, Jacob van Etten, Magne Neby, Svein Ø. Solberg:
Climate variability indices for ecological and crop models in R: the climatrends package. 4405 - Jeremy J. Webb:
clustertools: A Python Package for Analyzing Star Cluster Simulations. 4483 - David D. Hendriks, Robert G. Izzard:
binary_c-python: A Python-based stellar population synthesis tool and interface to binary_c. 4642
Volume 8, Number 86, June 2023
- Thomas Marks, Paul Schedler, Benjamin Jorns:
HallThruster.jl: a Julia package for 1D Hall thruster discharge simulation. 4672 - Valentin Lucet, Eric J. Pedersen:
The sspm R package for spatially-explicit surplus production population models. 4724 - Eric Bezzam, Sepand Kashani, Martin Vetterli, Matthieu Simeoni:
LenslessPiCam: A Hardware and Software Platform for Lensless Computational Imaging with a Raspberry Pi. 4747 - Fabian Hofmann:
Linopy: Linear optimization with n-dimensional labeled variables. 4823 - Stephan Druskat, Thomas Krause, Clara Lachenmaier, Bastian Bunzeck:
Hexatomic: An extensible, OS-independent platform for deep multi-layer linguistic annotation of corpora. 4825 - Zi Hao Liu, Oufan Zhang, João M. C. Teixeira, Jie Li, Teresa Head-Gordon, Julie D. Forman-Kay:
SPyCi-PDB: A modular command-line interface for back-calculating experimental datatypes of protein structures. 4861 - Marc Spiegelman, Owen Evans, Mark S. Ghiorso, Lucy Tweed, Cian Wilson:
ThermoCodegen: a python/C++ package for the generation of custom thermodynamic models. 4874 - Taha Zerrouki:
PyArabic: A Python package for Arabic text. 4886 - Michael Eder, Lukas M. P. Bauer, Daniel Forstenlechner, Georg S. Graßler, Sergei V. Kasilov, Winfried Kernbichler, Markus Meisterhofer, Michael Scheidt, Christopher G. Albert:
GORILLA: Guiding-center ORbit Integration with Local Linearization Approach. 4890 - Micah J. Weberg, Harry P. Warren, Nicholas Crump, Will T. Barnes:
EISPAC - The EIS Python Analysis Code. 4914 - Ka Yiu Hui, Chris H. C. Nguyen, Go Nam Lui, Rhea Patricia Liem:
AirTrafficSim: An open-source web-based air traffic simulation platform. 4916 - Anders Logg, Vasilis Naserentin, Dag Wästberg:
DTCC Builder: A mesh generator for automatic, efficient, and robust mesh generation for large-scale city modeling and simulation. 4928 - Christopher B. Anderson:
elapid: Species distribution modeling tools for Python. 4930 - Emily K. de Jong, Clare E. Singer, Sajjad Azimi, Piotr Bartman, Oleksii Bulenok, Kacper Derlatka, Isabella Dula, Anna Jaruga, J. Ben Mackay, Ryan X. Ward, Sylwester Arabas:
New developments in PySDM and PySDM-examples v2: collisional breakup, immersion freezing, dry aerosol initialization, and adaptive time-stepping. 4968 - Andreas Søgaard, Rasmus F. Ørsøe, Morten Holm, Leon Bozianu, Aske Rosted, Troels C. Petersen, Kaare Endrup Iversen, Andreas Hermansen, Tim Guggenmos, Peter Andresen, Martin Ha Minh, Ludwig Neste, Moust Holmes, Axel Pontén, Kayla Leonard DeHolton, Philipp Eller:
GraphNeT: Graph neural networks for neutrino telescope event reconstruction. 4971 - Tibor Dome:
CosmicProfiles: A Python package for radial profiling of finitely sampled dark matter halos and galaxies. 5008 - Koki Tsuyuzaki, Itoshi Nikaido:
nnTensor: An R package for non-negative matrix/tensor decomposition. 5015 - Zuzana Sebechlebská, Lusine Mkrtchyan, Alrik Thiem:
CORA and LOGIGRAM: A Duo of Python Packages for Combinational Regularity Analysis (CORA). 5019 - Javier Rodriguez Zaurin, Pavol Mulinka:
pytorch-widedeep: A flexible package for multimodal deep learning. 5027 - Simon Filhol, Joel Fiddes, Kristoffer Aalstad:
TopoPyScale: A Python Package for Hillslope Climate Downscaling. 5059 - Simon Richard Proud:
pycoxmunk: A python package for computing sea surface reflectance. 5074 - Matt Haberland:
Fast Resampling and Monte Carlo Methods in Python. 5092 - Ana Lawry Aguila, Alejandra Jayme, Nina Montaña Brown, Vincent Heuveline, André Altmann:
Multi-view-AE: A Python package for multi-view autoencoder models. 5093 - Konrad Höffner, Tim Baccaert:
hdt-rs: A Rust library for the Header Dictionary Triples binary RDF compression format. 5114 - George A. Pantelopulos, Aaron Liberatore:
MolPainter: A Tool for Painting and Solvating Layered Molecular Systems. 5128 - Patrick Aigner, Moritz Makowski, Andreas Luther, Florian Dietrich, Jia Chen:
Pyra: Automated EM27/SUN Greenhouse Gas Measurement Software. 5131 - Victoria Bogachenkova, Eduardo Costa Martins, Jarl Jansen, Ana-Maria Olteniceanu, Bartjan Henkemans, Chinno Lavin, Linh Nguyen, Thea Bradley, Veerle Fürst, Hossain Muhammad Muctadir, Mark van den Brand, Loek Cleophas, Alexander Serebrenik:
LaMa: a thematic labelling web application. 5135 - Felipe Bordeu, Fabien Casenave, Julien Cortial:
BasicTools: a numerical simulation toolbox. 5142 - Rony Ronen, Michael Britvin, Boaz Ben-Moshe:
SATLLA0: A Flight Software Platform for Aerospace and STEM Education. 5147 - Alexander Buccheri, Fabian Peschel, Benedikt Maurer, Mara Voiculescu, Daniel T. Speckhard, Hannah Kleine, Elisa Stephan, Martin Kuban, Claudia Draxl:
excitingtools: An exciting Workflow Tool. 5148 - Tanja Tornede, Alexander Tornede, Lukas Fehring, Lukas Gehring, Helena Graf, Jonas Hanselle, Felix Mohr, Marcel Wever:
PyExperimenter: Easily distribute experiments and track results. 5149 - Lasse Hansen, Ludvig Renbo Olsen, Kenneth C. Enevoldsen:
TextDescriptives: A Python package for calculating a large variety of metrics from text. 5153 - Aleksei Sholokhov, Peng Zheng, Aleksandr Y. Aravkin:
pysr3: A Python Package for Sparse Relaxed Regularized Regression. 5155 - Dmitry Bagaev, Albert Podusenko, Bert de Vries:
RxInfer: A Julia package for reactive real-time Bayesian inference. 5161 - Nicholas W. Landry, Maxime Lucas, Iacopo Iacopini, Giovanni Petri, Alice Schwarze, Alice Patania, Leo Torres:
XGI: A Python package for higher-order interaction networks. 5162 - Jan Baumgärtner, Malte Hansjosten, Dominik Schönhofen, Jürgen Fleischer:
PyBullet Industrial: A process-aware robot simulation. 5174 - Timothy J. Thurman, Charity L. Washam, Duah Alkam, Jordan T. Bird, Allen Gies, Kalyani Dhusia, Michael S. Robeson, Stephanie D. Byrum:
proteoDA: a package for quantitative proteomics. 5184 - Pavel V. Stishenko, Thomas W. Keal, Scott M. Woodley, Volker Blum, Benjamin Hourahine, Reinhard Johann Maurer, Andrew J. Logsdail:
Atomic Simulation Interface (ASI): application programming interface for electronic structure codes. 5186 - Gaëtan Cassiers, Olivier Bronchain:
SCALib: A Side-Channel Analysis Library. 5196 - Elliot Howley, Susan T. Francis, Denis Schluppeck:
fRAT: an interactive, Python-based tool for region-of-interest summaries of functional imaging data. 5200
Volume 8, Number 87, July 2023
- Ann S. Almgren, Aaron M. Lattanzi, Riyaz Haque, Pankaj Jha, Branko Kosovic, Jeffrey D. Mirocha, Bruce A. Perry, Eliot W. Quon, Michael Sanders, David Wiersema, Donald E. Willcox, Xingqiu Yuan, Weiqun Zhang:
ERF: Energy Research and Forecasting. 5202 - Paul Ritsche, Olivier Seynnes, Neil J. Cronin:
DL_Track_US: a python package to analyse muscle ultrasonography images. 5206 - Chenhui Jia, Lizette Carpenter, Thu Tran, Amanda Y. Liu, Sasha Yeutseyeva, Marium Tapal, Yingke Wang, Zoie Kexin Zhao, Jordan Moody, Denise Nava, Eleanor Donaher, Lillian Yushu Jiang, Ben Bruncati, Katherine M. Kinnaird:
repytah: An Open-Source Python Package for Building Aligned Hierarchies for Sequential Data. 5213 - Jacqueline Höllig, Cedric Kulbach, Steffen Thoma:
TSInterpret: A Python Package for the Interpretability of Time Series Classification. 5220 - Patrick J. Roddy:
SLEPLET: Slepian Scale-Discretised Wavelets in Python. 5221 - Prashin Jethwa:
popkinmocks: mock IFU datacubes for modelling stellar populations and kinematics. 5225 - Hamza Ahsan, Zarrar Khan, Abigail Snyder, Page Kyle, Chris R. Vernon:
osiris: An R package to process climate impacts on agricultural yields for the Global Change Analysis Model. 5226 - William S. DeWitt, Luke Zhu, Mitchell R. Vollger, Michael E. Goldberg, Andrea Talenti, Annabel C. Beichman, Kelley Harris:
mutyper: assigning and summarizing mutation types for analyzing germline mutation spectra. 5227 - Timothy George Pelham:
LyceanEM: A python package for virtual prototyping of antenna arrays, time and frequency domain channel modelling. 5234 - David Schoch:
graphlayouts: Layout algorithms for network visualizations in R. 5238 - Jacob F. Anderson, Kevin S. Anderson, Tamara Beschorner:
gemlog: Data Conversion for the Open-Source Gem Infrasound Logger. 5256 - Andrew Harris, Terrence S. Tricco:
Sarracen: a Python package for analysis and visualization of smoothed particle hydrodynamics data. 5263 - Tom Eulenfeld:
yam: Yet another monitoring tool using correlations of ambient noise. 5267 - Kohei Shinohara, Atsushi Togo, Isao Tanaka:
spgrep: On-the-fly generator of space-group irreducible representations. 5269 - Maciek Bak:
Hypercomplex: abstract & fast header-only C++ template library for lattice-based cryptosystems in high-dimensional algebras. 5272 - Henrik A. Kjeldsberg, Aslak Wigdahl Bergersen, Kristian Valen-Sendstad:
VaMPy: An Automated and Objective Pipeline for Modeling Vascular Geometries. 5278 - Marc Schouler, Robert Alexander Caulk, Lucas Thibaut Meyer, Théophile Terraz, Christoph Conrads, Sebastian Friedemann, Achal Agarwal, Juan Manuel Baldonado, Bartlomiej Pogodzinski, Anna Sekula, Alejandro Ribés, Bruno Raffin:
Melissa: coordinating large-scale ensemble runs for deep learning and sensitivity analyses. 5291 - James Ohisei Uanhoro:
minorbsem: An R package for structural equation models that account for the influence of minor factors. 5292 - Johan Hidding, Pablo Rodríguez-Sánchez:
byteparsing: a functional parser combinator for mixed ASCII/binary data. 5293 - Penelope R. How, Patrick J. Wright, Kenneth D. Mankoff, Baptiste Vandecrux, Robert S. Fausto, Andreas P. Ahlstrøm:
pypromice: A Python package for processing automated weather station data. 5298 - Nikolas Ovaskainen:
fractopo: A Python package for fracture network analysis. 5300 - Hernán E. Grecco, Matthieu C. Dartiailh, Gregor Thalhammer-Thurner, Torsten Bronger, Florian Bauer:
PyVISA: the Python instrumentation package. 5304 - Pamphile T. Roy, Art B. Owen, Maximilian Balandat, Matt Haberland:
Quasi-Monte Carlo Methods in Python. 5309 - Mike Walmsley, Campbell Allen, Ben Aussel, Micah Bowles, Kasia Gregorowicz, Inigo Val Slijepcevic, Chris J. Lintott, Anna M. M. Scaife, Maja Jablonska, Kosio Karchev, Denise Lanzieri, Devina Mohan, David O'Ryan, Bharath Saiguhan, Crisel Suárez, Nicolás Guerra-Varas, Renuka Velu:
Zoobot: Adaptable Deep Learning Models for Galaxy Morphology. 5312 - Lynn Schmittwilken, Marianne Maertens, Joris Vincent:
stimupy: A Python package for creating stimuli in vision science. 5321 - Saeed Mohammadzadeh, Emma Lejeune:
SarcGraph: A Python package for analyzing the contractile behavior of pluripotent stem cell-derived cardiomyocytes. 5322 - Naoki Kanazawa, Daniel J. Egger, Yael Ben-Haim, Helena Zhang, William E. Shanks, Gadi Aleksandrowicz, Christopher J. Wood:
Qiskit Experiments: A Python package to characterize and calibrate quantum computers. 5329 - Robert Marskar:
chombo-discharge: An AMR code for gas discharge simulations in complex geometries. 5335 - Isak Roalkvam:
shoredate: An R package for shoreline dating coastal Stone Age sites. 5337 - Daniel Nagel, Gerhard Stock:
msmhelper: A Python package for Markov state modeling of protein dynamics. 5339 - Kevin Michalewicz, Martin Millon, Frédéric Dux, Frederic Courbin:
STARRED: a two-channel deconvolution method with Starlet regularization. 5340 - Joshua R. de Leeuw, Rebecca A. Gilbert, Björn Luchterhandt:
jsPsych: Enabling an Open-Source Collaborative Ecosystem of Behavioral Experiments. 5351 - Vincent Stimper, David Liu, Andrew Campbell, Vincent Berenz, Lukas Ryll, Bernhard Schölkopf, José Miguel Hernández-Lobato:
normflows: A PyTorch Package for Normalizing Flows. 5361 - Matt Higham, Jay M. Ver Hoef, Bryce Frank, Michael Dumelle:
sptotal: an R package for predicting totals and weighted sums from spatial data. 5363 - Tim Bode, Dmitry Bagrets, Aditi Misra-Spieldenner, Tobias Stollenwerk, Frank K. Wilhelm:
QAOA.jl: Toolkit for the Quantum and Mean-Field Approximate Optimization Algorithms. 5364 - Rémi Vezy:
PlantSimEngine: A Simulation Engine For The Soil-Plant-Atmosphere System. 5371 - Phillip Chlap, Robert N. Finnegan:
PlatiPy: Processing Library and Analysis Toolkit for Medical Imaging in Python. 5374 - Chenglin Niu, Dagang Guo, Marcus Eng Hock Ong, Zhixiong Koh, Guerry Alexiane Laure Marie-Alix, Andrew Fu Wah Ho, Zhiping Lin, Chengyu Liu, Gari D. Clifford, Nan Liu:
HRnV-Calc: A Software for Heart Rate n-Variability and Heart Rate Variability Analysis. 5391 - Lucas Miranda, Joeri Bordes, Benno Pütz, Mathias V. Schmidt, Bertram Müller-Myhsok:
DeepOF: a Python package for supervised and unsupervised pattern recognition in mice motion tracking data. 5394 - Eidan J. Rosado:
PII-Codex: a Python library for PII detection, categorization, and severity assessment. 5402 - Clemens Brunner, Florian Hofer:
SleepECG: a Python package for sleep staging based on heart rate. 5411 - Pascal Bourgault, David Huard, Trevor James Smith, Travis Logan, Abel Aoun, Juliette Lavoie, Éric Dupuis, Gabriel Rondeau-Genesse, Raquel Alegre, Clair Barnes, Alexis Beaupré Laperrière, Sébastien Biner, David Caron, Carsten Ehbrecht, Jeremy Fyke, Tom Keel, Marie-Pier Labonté, Ludwig Lierhammer, Jwen Fai Low, Jamie Quinn, Philippe Roy, Dougie Squire, Ag Stephens, Maliko Tanguy, Christopher Whelan:
xclim: xarray-based climate data analytics. 5415 - Quang C. Huynh, Tom R. Carruthers, Adrian R. Hordyk:
Reference Point Calculator (RPC): A Shiny app for exploration of limit reference points for fisheries management. 5418 - Bobby Huggins, Chengkun Li, Marlon Tobaben, Mikko J. Aarnos, Luigi Acerbi:
PyVBMC: Efficient Bayesian inference in Python. 5428 - Gianmarco G. Terrones, Yu Chen, Archit Datar, Li-Chiang Lin, Heather J. Kulik, Yongchul G. Chung:
SESAMI APP: An Accessible Interface for Surface Area Calculation of Materials from Adsorption Isotherms. 5429 - Fruzsina Julia Agocs, Alex H. Barnett:
riccati: an adaptive, spectral solver for oscillatory ODEs. 5430 - Fabian Denner, Sören Schenke:
APECSS: A software library for cavitation bubble dynamics and acoustic emissions. 5435 - Jack M. Wolf:
tehtuner: An R package to fit and tune models for the conditional average treatment effect. 5453 - Jonas Schmidt, Lukas Vollmer, Martin Dörenkämper, Bernhard Stoevesandt:
FOXES: Farm Optimization and eXtended yield Evaluation Software. 5464 - A Samuel Pottinger, Giulia Zarpellon:
Pyafscgap.org: Open source multi-modal Python-based tools for NOAA AFSC RACE GAP. 5593 - Jaroslav M. Fowkes, Nicholas I. M. Gould:
GALAHAD 4.0: an open source library of Fortran packages with C and Matlab interfaces for continuous optimization. 4882 - Thomas Baldauf:
sfctools - A toolbox for stock-flow consistent, agent-based models. 4980 - Viktor Ananiev, Alexander L. Read:
SigCorr: A Python package for studies of trials factors. 4989 - Vincent Nguyen, Sarvnaz Karimi, Zhenchang Xing:
DeBEIR: A Python Package for Dense Bi-Encoder Information Retrieval. 5017 - Muhammed Shuaibi, Yuge Hu, Xiangyun Lei, Benjamin M. Comer, Matt Adams, Jacob Paras, Rui Qi Chen, Eric Musa, Joseph Musielewicz, Andrew A. Peterson, Andrew J. Medford, Zachary W. Ulissi:
AmpTorch: A Python package for scalable fingerprint-based neural network training on multi-element systems with integrated uncertainty quantification. 5035 - Christopher Teubert, Katelyn J. Jarvis, Matteo Corbetta, Chetan S. Kulkarni, Matthew J. Daigle:
ProgPy: Python Packages for Prognostics and Health Management of Engineering Systems. 5099 - Marty Oelschläger, Simon Hermann, Christoph H. Egerland, Daniel Reiche:
QuaCa: an open-source library for fast calculations of steady-state quantum friction. 5160 - Matthew R. Carbone, Fanchen Meng, Christian Vorwerk, Benedikt Maurer, Fabian Peschel, Xiaohui Qu, Eli Stavitski, Claudia Draxl, John Vinson, Deyu Lu:
Lightshow: a Python package for generating computational x-ray absorption spectroscopy input files. 5182 - Edward A. Roualdes, Brian Ward, Bob Carpenter, Adrian Seyboldt, Seth D. Axen:
BridgeStan: Efficient in-memory access to the methods of a Stan model. 5236 - Nicolas Christ, Benedikt M. Scheuring, John Montesano, Jörg Hohe:
HomoPy: A Python package for homogenization procedures in fiber reinforced polymers. 5295 - James Emmanuel San, Stephanie van Wyk, Houriiyah Tegally, Simeon Eche, Eduan Wilkinson, Aquillah M. Kanzi, Tulio de Oliveira, Anmol M. Kiran:
SeqPanther: Sequence manipulation and mutation statistics toolset. 5305 - Hannah M. Hajdik, Anil Yildirim, Neil Wu, Benjamin J. Brelje, Sabet Seraj, Marco Mangano, Joshua L. Anibal, Eirikur Jonsson, Eytan J. Adler, Charles A. Mader, Gaetan K. W. Kenway, Joaquim R. R. A. Martins:
pyGeo: A geometry package for multidisciplinary design optimization. 5319 - Dario Coscia, Anna Ivagnes, Nicola Demo, Gianluigi Rozza:
Physics-Informed Neural networks for Advanced modeling. 5352 - Paul J. N. Brodersen:
Netgraph: Publication-quality Network Visualisations in Python. 5372 - Amirali Hossein, Alexander J. Sodt:
MembraneAnalysis.jl: A Julia package for analyzing molecular dynamics simulations of lipid membranes. 5380 - Robert Myhill, Sanne Cottaar, Timo Heister, Ian Rose, Cayman Unterborn, Juliane Dannberg, Rene Gassmöller:
BurnMan - a Python toolkit for planetary geophysics, geochemistry and thermodynamics. 5389 - Enrico Garaldi:
CoReCon: an open, community-powered collection of Reionization constraints. 5407 - I. A. W. Filot:
EDP: a program for projecting electron densities from VASP onto planes. 5417
Volume 8, Number 88, August 2023
- Leah M. Crowe, Tim V. N. Cole, Heather J. Foley, Danielle Cholewiak:
Shiny tools for management rules: interactive applications that aid in conservation strategies for North Atlantic right whales. 5436 - Marcin Rogowski, Lisandro Dalcín, Jeff R. Hammond, David E. Keyes:
shmem4py: OpenSHMEM for Python. 5444 - Joren Six:
Olaf: a lightweight, portable audio search system. 5459 - Rémi Thériault:
rempsyc: Convenience functions for psychology. 5466 - Ricard Lado-Roigé, Marco A. Pérez:
ViMag: A Visual Vibration Analysis Toolbox. 5491 - Nathan Bell, Luke N. Olson, Jacob B. Schroder, Ben S. Southworth:
PyAMG: Algebraic Multigrid Solvers in Python. 5495 - Koki Tsuyuzaki:
iTensor: An R package for independent component analysis-based matrix/tensor decomposition. 5496 - Yoli Meydan, Federico Baldini, Tal Korem:
pymgpipe: microbiome metabolic modeling in Python. 5545 - Carlo Brunelli:
SyntheticEddyMethod.jl: A Julia package for the creation of inlet flow conditions for LES. 5565 - Augustin Marignier:
PxMCMC: A Python package for proximal Markov Chain Monte Carlo. 5582 - Bernardo P. Ferreira, F. M. Andrade Pires, Miguel A. Bessa:
CRATE: A Python package to perform fast material simulations. 5594 - Moritz E. Beber, Maxime Borry, Sofia Stamouli, James A. Fellows Yates:
TAXPASTA: TAXonomic Profile Aggregation and STAndardisation. 5627
Volume 8, Number 88, August 2023
- Sebastian Hönel, Morgan Ericsson, Welf Löwe, Anna Wingkvist:
Metrics As Scores: A Tool- and Analysis Suite and Interactive Application for Exploring Context-Dependent Distributions. 4913 - Krishna Kumar, Joseph Vantassel:
GNS: A generalizable Graph Neural Network-based simulator for particulate and fluid modeling. 5025 - Brandon P. Montemuro, Georgy E. Manucharyan:
SubZero: a discrete element sea ice model that simulates floes as evolving concave polygons. 5039 - Cliff C. Kerr, Paula Sanz-Leon, Romesh G. Abeysuriya, George L. Chadderdon, Vlad-Stefan Harbuz, Parham Saidi, Maria Mar del Quiroga, Rowan Martin-Hughes, Sherrie L. Kelly, Jamie A. Cohen, Robyn M. Stuart, Anna Nachesa:
Sciris: Simplifying scientific software in Python. 5076 - Qi Cui, Joshua P. Le, Albert Chai, Andrew S. Lee, Jitarth Sheth, Kevin Banh, Priya Pahal, Katherine Ly, Stanley M. Lo:
discourseGT: An R package to analyze discourse networks in educational contexts. 5143 - Jules Penuchot, Joel Falcou:
ctbench - compile-time benchmarking and analysis. 5165 - Johannes Hentschel, Martin Rohrmeier:
ms3: A parser for MuseScore files, serving as data factory for annotated music corpora. 5195
Volume 8, Number 89, September 2023
- Martin Fleischmann:
Clustergram: Visualization and diagnostics for cluster analysis. 5240 - Frank Male, Michael P. Marder, Leopoldo M. Ruiz-Maraggi, Larry W. Lake:
Bluebonnet: Scaling solutions for production analysis from unconventional oil and gas wells. 5255 - Julian Paul Reul, Thomas Grube, Jochen Linssen, Detlef Stolten:
MODE.behave: A Python Package for Discrete Choice Modeling. 5265 - Luciano Lorenti, Gian Antonio Susto:
CeRULEo: Comprehensive utilitiEs for Remaining Useful Life Estimation methOds. 5294 - Steve Kench, Isaac Squires, Samuel J. Cooper:
TauFactor 2: A GPU accelerated python tool for microstructural analysis. 5358 - Roberto L. S. Monteiro, Renata Souza Freitas Dantas Barreto, Andréia Rita da Silva, Alexandre do Nascimento Silva, José Roberto Araújo de Fontoura, Marcos Batista Figueredo, Hernane Borges de Barros Pereira:
CNATool - Complex Network Analysis Tool. 5373 - Clément Scheirlinck, Rémy Chaput, Salima Hassas:
Ethical Smart Grid: a Gym environment for learning ethical behaviours. 5410 - Maxime Lenormand:
TDLM: An R package for a systematic comparison of trip distribution laws and models. 5434 - Xiangyun Lei, Joseph Montoya:
GMP-Featurizer: A parallelized Python package for efficiently computing the Gaussian Multipole features of atomic systems. 5476 - Arend Moerman, Maikel H. Gafaji, Kenichi Karatsu, Akira Endo:
PyPO: a Python package for Physical Optics. 5478 - Bob Aubouin-Pairault, Mirko Fiacchini, Thao Dang:
PAS: a Python Anesthesia Simulator for drug control. 5480 - Robert J. Wilson, Yuri Artioli:
nctoolkit: A Python package for netCDF analysis and post-processing. 5494 - Jan Simson, Olga Kononykhina, Malte Schierholz:
occupationMeasurement: A Comprehensive Toolbox for Interactive Occupation Coding in Surveys. 5505 - Aymeric Galan, Lyne Van de Vyvere, Matthew R. Gomer, Georgios Vernardos, Dominique Sluse:
COOLEST: COde-independent Organized LEns STandard. 5567 - Peter van Lunteren:
EcoAssist: A no-code platform to train and deploy custom YOLOv5 object detection models. 5581 - Ashwin Vishnu Mohanan, Arman Khoubani, Pierre Augier:
Snek5000: a new Python framework for Nek5000. 5586 - Pieterjan Robbe:
GaussianRandomFields.jl: A Julia package to generate and sample from Gaussian random fields. 5595 - Jodavid de A. Ferreira, Ronei M. Moraes:
FuzzyClass: A family of Fuzzy and Non-Fuzzy probabilistic-based classifiers. 5613 - Oliver Wallscheid, Sebastian Peitz, Jan Stenner, Daniel Weber, Septimus Boshoff, Marvin Meyer, Vikas Chidananda, Oliver Schweins:
ElectricGrid.jl - A Julia-based modeling and simulation tool for power electronics-driven electric energy grids. 5616 - Charles Vernerey, Samir Loudni:
A Java Library for Itemset Mining with Choco-solver. 5654 - Mirko Rosenthal, David J. Richter, Falk Hübner, Jochen Staudacher, Arend Hintze:
APGG - A Modular C++ Framework for Asymmetric Public Goods Games. 4944
Volume 8, Number 90, October 2023
- Matthew R. Carbone, Stepan Fomichev, Andrew J. Millis, Mona Berciu, David R. Reichman, John Sous:
The Generalized Green's function Cluster Expansion: A Python package for simulating polarons. 5115 - Win Cowger, Steven Hollingsworth, Day Fey, Mary C. Norris, Walter Yu, Kristiina Kerge, Kris Haamer, Gina Durante, Brianda Hernandez:
Trash AI: A Web GUI for Serverless Computer Vision Analysis of Images of Trash. 5136 - Alexis Montoison, Dominique Orban:
Krylov.jl: A Julia basket of hand-picked Krylov methods. 5187 - Sebastian Haan, Januar Harianto, Nathaniel Butterworth, Thomas F. A. Bishop:
Geodata-Harvester: A Python package to jumpstart geospatial data extraction and analysis. 5205 - Jérémy Gelb:
geocmeans: An R package for spatial fuzzy c-means. 5259 - Euan N. Furness, Russell J. Garwood, Mark D. Sutton:
REvoSim v3: A fast evolutionary simulation tool with ecological processes. 5284 - Daniel Ryan, Stuart Mumford, Yash Sharma, Ankit Kumar Baruah, Adwait Bhope, Nabil Freij, Laura A. Hayes, Will T. Barnes, Baptiste Pellorce, Richard O'Steen, Derek Homeier, J. Marcus Hughes, David Stansby, Albert Y. Shih, Matthew J. West:
ndcube: Manipulating N-dimensional Astronomical Data in Python. 5296 - Adam Spannaus, John Gounley, Mayanka Chandra Shekar, Zachary R. Fox, Jamaludin Mohd-Yusof, Noah Schaefferkoetter, Heidi A. Hanson:
FrESCO: Framework for Exploring Scalable Computational Oncology. 5345 - Lorenzo V. Mugnai, Andrea Bocchieri, Enzo Pascale:
ExoRad 2.0: The generic point source radiometric model. 5348 - Brendan Whelan, Leo Esnault:
ParticlePhaseSpace: A python package for streamlined import, analysis, and export of particle phase space data. 5375 - Olga A. Doronina, Zachary J. Grey, Andrew Glaws:
G2Aero: A Python package for separable shape tensors. 5408 - Angelina E. Uno-Antonison, Rabab Fatima, James Scherer, Alexander C. Moss, Donna M. Brown, Aleksandra Foksinska, Manavalan Gajapathy, Elizabeth J. Wilk, Brittany N. Lasseigne, Elizabeth A. Worthey:
Rosalution: Supporting data accessibility, integration, curation, interoperability, and reuse for precision animal modeling. 5443 - Jakob L. Sønstebø, Herman Brunborg, Mikkel Elle Lepperød:
Spikeometric: Linear Non-Linear Cascade Spiking Neural Networks with Pytorch Geometric. 5451 - Nando Hegemann, Sebastian Heidenreich:
PyThia: A Python package for Uncertainty Quantification based on non-intrusive polynomial chaos expansions. 5489 - Alejandro A. Icazatti, Oriol Abril Pla, Arto Klami, Osvaldo A. Martin:
PreliZ: A tool-box for prior elicitation. 5499 - Patrick Wingo, Devin Justman, C. Gabriel Creason, Mackenzie Mark-Moser, Scott Montross, Kelly Rose:
A Python Tool for Predicting and Assessing Unconventional Rare-Earth and Critical Mineral Resources. 5500 - Samuel Duffield, Gabriel Matos, Melf Johannsen:
qujax: Simulating quantum circuits with JAX. 5504 - Yu-Kun Qian:
xinvert: A Python package for inversion problems in geophysical fluid dynamics. 5510 - Christian Klemm, Gregor Becker, Jan N. Tockloth, Janik Budde, Peter Vennemann:
The Spreadsheet Energy System Model Generator (SESMG): A tool for the optimization of urban energy systems. 5519 - Samuel C. Musson, Matteo T. Degiacomi:
Molearn: a Python package streamlining the design of generative models of biomolecular dynamics. 5523 - Pål Næverlid Sævik:
Effluent: A Python package for modelling effluent discharge. 5554 - David J. Schodt, Michael J. Wester, Mohamadreza Fazel, Sajjad Khan, Hanieh Mazloom-Farsibaf, Sandeep Pallikkuth, Marjolein B. m. Meddens, Farzin Farzam, Eric A. Burns, William K. Kanagy, Derek A. Rinaldi, Elton Jhamba, Sheng Liu, Peter K. Relich, Mark J. Olah, Stanly L. Steinberg, Keith A. Lidke:
SMITE: Single Molecule Imaging Toolbox Extraordinaire (MATLAB). 5563 - Jasper H. Bussemaker:
SBArchOpt: Surrogate-Based Architecture Optimization. 5564 - Maryam Azizi, Jan Wilhelm, Dorothea Golze, Matteo Giantomassi, Ramón L. Panadés-Barrueta, Francisco A. Delesma, Alexander Buccheri, Andris Gulans, Patrick Rinke, Claudia Draxl, Xavier Gonze:
Time-frequency component of the GreenX library: minimax grids for efficient RPA and \textit{GW} calculations. 5570 - Laura Boeschoten, Niek C. de Schipper, Adriënne M. Mendrik, Emiel van der Veen, Bella Struminskaya, Heleen Janssen, Theo B. Araujo:
Port: A software tool for digital data donation. 5596 - Thore Kockerols:
MacroModelling.jl: A Julia package for developing and solving dynamic stochastic general equilibrium models. 5598 - Aaron T. L. Lun, Jayaram Kancherla:
Powering single-cell analyses in the browser with WebAssembly. 5603 - Tobin M. Wainer, Tom Wagg, Vijith Jacob Poovelil, Gail Zasowski:
ELK: A python package for correcting, analyzing, and diagnosing TESS integrated light curves. 5605 - Lampros Bouranis:
Bernadette: Bayesian Inference and Model Selection for Stochastic Epidemics in R. 5612 - Paul J. Atzberger:
MLMOD: Machine Learning Methods for Data-Driven Modeling in LAMMPS. 5620 - Jacob Blum, Kainen L. Utt:
Simulated Diffusion in Realistic Imaging Features of Tissue (Sim-DRIFT). 5621 - Emerson Martins de Andrade, Antonio Carlos Fernandes, Joel Sena Sales:
PySwarming: a research toolkit for Swarm Robotics. 5647 - Ole Bialas, Jin Dou, Edmund C. Lalor:
mTRFpy: A Python package for temporal response function analysis. 5657 - Henrik Dvergsdal:
CRSocket: A web app component facilitating the administration of digital trials from a separate device. 5658 - Qiusheng Wu, Lucas Prado Osco:
samgeo: A Python package for segmenting geospatial data with the Segment Anything Model (SAM). 5663 - Antun Skuric, Vincent Padois, David Daney:
Pycapacity: a real-time task-space capacity calculation package for robotics and biomechanics. 5670 - Iskandar Sitdikov, Michaël Rollin, Ansah Mohammad Kuriyodath, Luis Eduardo Martínez Hérnandez:
PurpleCaffeine: tracking of quantum programs and experiments. 5673 - Beniamino Green:
Zoomerjoin: Superlatively-Fast Fuzzy Joins. 5693 - Martin Roa Villescas, Jin-Guo Liu:
TensorInference: A Julia package for tensor-based probabilistic inference. 5700 - Stefan T. Radev, Marvin Schmitt, Lukas Schumacher, Lasse Elsemüller, Valentin Pratz, Yannik Schälte, Ullrich Köthe, Paul-Christian Bürkner:
BayesFlow: Amortized Bayesian Workflows With Neural Networks. 5702 - Imad Pasha, Tim B. Miller:
pysersic: A Python package for determining galaxy structural properties via Bayesian inference, accelerated with jax. 5703 - Fabio Cumbo, Emanuel Weitschek, Daniel Blankenberg:
hdlib: A Python library for designing Vector-Symbolic Architectures. 5704 - I. A. W. Filot, M. P. C. van Etten, D. W. J. G. Trommelen, E. J. M. Hensen:
Bramble: adaptive common neighbor analysis (CNA) for the recognition of surface topologies in nanoparticles. 5710 - Zachery Crandall, Blake Mulnix, Branden Butler, Theresa L. Windus, Ryan M. Richard:
CMakePPLang: An object-oriented extension to CMake. 5711 - Federico Errica, Davide Bacciu, Alessio Micheli:
PyDGN: a Python Library for Flexible and Reproducible Research on Deep Learning for Graphs. 5713 - Gustavo Viera-López, Jorge J. Morgado-Vega, Alfredo Reyes, Ernesto Altshuler, Yudivián Almeida-Cruz, Giorgio Manganini:
pactus: A Python framework for trajectory classification. 5738 - Charlotte Soneson, Vytautas Iesmantavicius, Daniel Hess, Michael B. Stadler, Jan Seebacher:
einprot: flexible, easy-to-use, reproducible workflows for statistical analysis of quantitative proteomics data. 5750 - Arnau Quera-Bofarull, Joel Dyer, Anisoara Calinescu, J. Doyne Farmer, Michael J. Wooldridge:
BlackBIRDS: Black-Box Inference foR Differentiable Simulators. 5776 - Derek Meyer, George G. Vega Yon:
epiworldR: Fast Agent-Based Epi Models. 5781 - Andreas Schneider:
concstats: Market Structure, Concentration and Inequality Measures, with R. 5885 - Jess D. Tate, Zexin Liu, Jake A. Bergquist, Sumientra Rampersad, Dan White, Chantel Charlebois, Lindsay C. Rupp, Dana H. Brooks, Rob S. MacLeod, Akil Narayan:
UncertainSCI: A Python Package for Noninvasive Parametric Uncertainty Quantification of Simulation Pipelines. 4249 - Daniel O'Malley, Sarah Y. Greer, Aleksandra Pachalieva, Wu Hao, Dylan Robert Harp, Velimir V. Vesselinov:
DPFEHM: a differentiable subsurface physics simulator. 4560 - Thierry Galliano, Guillaume Gay, Laurent Limozin, Pierre-Henri Puech:
OT_Analysis: a software for rich analysis of force curves when probing living cells with optical tweezers. 4877 - Kathryn L. Doering, Nathan R. Vaughan, John F. Walter, Richard D. Methot, Skyler R. Sagarese, Matthew Smith, Nicholas A. Farmer, Shannon Calay, Nancie J. Cummings, Kelli F. Johnson, Kristin Marshall, Cassidy D. Peterson, Ian G. Taylor, Chantel R. Wetzel:
SSMSE: An R package for Management Strategy Evaluation with Stock Synthesis Operating Models. 4937 - Tom Kimpson:
RelativisticDynamics.jl: Relativistic Spin-Orbital Dynamics in Julia. 4992 - Candace Makeda Moore, Walter Baccinelli, Oleg Sivokon, Robertus Simon Petrus Warnaar, Eline Oppersma:
ReSurfEMG: A Python library for preprocessing and analysis of respiratory EMG. 5251 - Manavalan Gajapathy, Brandon M. Wilk, Elizabeth A. Worthey:
QuaC: A Pipeline Implementing Quality Control Best Practices for Genome Sequencing and Exome Sequencing Data. 5313 - Jungtaek Kim, Seungjin Choi:
BayesO: A Bayesian optimization framework in Python. 5320 - Markus Scheidgen, Lauri Himanen, Alvin N. Ladines, David Sikter, Mohammad Nakhaee, Ádám Fekete, Theodore Chang, Amir Golparvar, José A. Márquez, Sandor Brockhauser, Sebastian Brückner, Luca M. Ghiringhelli, Felix Dietrich, Daniel Lehmberg, Thea Denell, Andrea Albino, Hampus Näsström, Sherjeel Shabih, Florian Dobener, Markus Kühbach, Rubel Mozumder, Joseph F. Rudzinski, Nathan Daelman, José M. Pizarro, Martin Kuban, Cuauhtemoc Salazar, Pavel Ondracka, Hans-Joachim Bungartz, Claudia Draxl:
NOMAD: A distributed web-based platform for managing materials science research data. 5388 - Juliette Hayer, Jacques Dainat, Ella Marcy, Anne-Laure Bañuls:
Baargin: a Nextflow workflow for the automatic analysis of bacterial genomics data with a focus on Antimicrobial Resistance. 5397 - Carlisle Wishard, Jennifer Pouplin, Jacob Elliott, Dana Singh, Kaustub Anand, David Minton:
Swiftest: An \textit{N}-body Integrator for Gravitational Systems. 5409 - Giuseppe Marco Randazzo:
libscientific: A Powerful C Library for Multivariate Analysis. 5420
Volume 8, Number 91, November 2023
- David McCoy, Alejandro Schuler, Alan E. Hubbard, Mark J. van der Laan:
SuperNOVA: Semi-Parametric Identification and Estimation of Interaction and Effect Modification in Mixed Exposures using Stochastic Interventions in R. 5422 - Chang Liao, Matt G. Cooper:
pyflowline: a mesh-independent river network generator for hydrologic models. 5446 - Lucas Esclapez, Marc Day, John Bell, Anne Felden, Candace Gilet, Ray W. Grout, Marc T. Henry de Frahan, Emmanuel Motheau, Andrew Nonaka, Landon Owen, Bruce A. Perry, Jon S. Rood, Nicolas Wimer, Weiqun Zhang:
PeleLMeX: an AMR Low Mach Number Reactive Flow Simulation Code without level sub-cycling. 5450 - Matthew G. Cooper, Tian Zhou:
baseflow: a MATLAB and GNU Octave package for baseflow recession analysis. 5492 - Hyosub E. Kim:
bayes-toolbox: A Python package for Bayesian statistics. 5526 - Clémence Réda, Andrée Delahaye-Duriez:
NORDic: a Network-Oriented package for the Repurposing of Drugs. 5532 - Trine Enemark:
mikecalsetup: an open-source python tool for automatically creating calibration setups of MIKE SHE models in PEST or OSTRICH. 5548 - Paul Rougieux, Selene Patani, Mirco Migliavacca:
Biotrade: A Python package to access and analyse the international trade of bio-based products. 5550 - Frank T. Bergmann:
BASICO: A simplified Python interface to COPASI. 5553 - Monthakan Lertkiattrakul, Matthew L. Evans, Matthew J. Cliffe:
PASCal Python: A Principal Axis Strain Calculator. 5556 - Emmanuel Farhi:
DARTS: The Data Analysis Remote Treatment Service. 5562 - Mike Shengbo Wang, Florian Beutler, Naonori S. Sugiyama:
Triumvirate: A Python/C++ package for three-point clustering measurements. 5571 - Unai Alegre Ibarra, Hans-Christian Ruiz Euler, Humaid A. Mollah, Bozhidar P. Petrov, Srikumar S. Sastry, Marcus N. Boon, Michel P. de Jong, Mohamadreza Zolfagharinejad, Florentina M. j. Uitzetter, Bram van de Ven, António J. Sousa de Almeida, Sachin Kinge, Wilfred G. van der Wiel:
brains-py, A framework to support research on energy-efficient unconventional hardware for machine learning. 5573 - Justin G. Laughlin, Jørgen S. Dokken, Henrik Nicolay Topnes Finsberg, Emmet A. Francis, Christopher T. Lee, Marie E. Rognes, Padmini Rangamani:
SMART: Spatial Modeling Algorithms for Reactions and Transport. 5580 - Szymon Molinski:
WSKNN - Weighted Session-based K-NN recommender system. 5639 - Jago Strong-Wright, Si Chen, Navid C. Constantinou, Simone Silvestri, Gregory LeClaire Wagner, John R. Taylor:
OceanBioME.jl: A flexible environment for modelling the coupled interactions between ocean biogeochemistry and physics. 5669 - Damar Wicaksono, Michael Hecht:
UQTestFuns: A Python3 library of uncertainty quantification (UQ) test functions. 5671 - Che-Wei Chang, Karl Schmid:
GGoutlieR: an R package to identify and visualize unusual geo-genetic patterns of biological samples. 5687 - Oliver R. T. King, Leigh N. Fletcher:
PlanetMapper: A Python package for visualising, navigating and mapping Solar System observations. 5728 - Ilian Pihlajamaa, Corentin C. l. Laudicina, Thomas Voigtmann, Liesbeth M. C. Janssen:
ModeCouplingTheory.jl: A solver for mode-coupling-theory-like integro-differential equations. 5737 - W. Jake Thompson:
measr: Bayesian psychometric measurement using Stan. 5742 - Nicolas Casajus, Érica Rievrs Borges, Éric Tabacchi, Guillaume Fried, Nicolas Mouquet:
chessboard: An R package for creating network connections based on chess moves. 5753 - Caleb Evans, Eliot Wong Robson:
automata: A Python package for simulating and manipulating automata. 5759 - Aaron T. L. Lun, Jayaram Kancherla:
gesel: a JavaScript package for client-side gene set enrichment. 5777 - Dennis Gläser, Timo Koch, Bernd Flemisch:
GridFormat: header-only C++-library for grid file I/O. 5778 - Rik Huijzer, Frank Blaauw, Ruud J. R. Den Hartigh:
SIRUS.jl: Interpretable Machine Learning via Rule Extraction. 5786 - Raghav Kansal, Carlos Pareja, Zichun Hao, Javier M. Duarte:
JetNet: A Python package for accessing open datasets and benchmarking machine learning methods in high energy physics. 5789 - Nathan Martindale, Scott Stewart, Jason M. Hite, Mark B. Adams:
Curifactory: A research experiment manager. 5793 - Ishaan Desai, Erik Scheurer, Carina Bringedal, Benjamin Uekermann:
Micro Manager: a Python package for adaptive and flexible two-scale coupling. 5842 - Daniel Puzzuoli, Christopher J. Wood, Daniel J. Egger, Benjamin Rosand, Kento Ueda:
Qiskit Dynamics: A Python package for simulating the time dynamics of quantum systems. 5853 - Jackson W. Burns, Kevin A. Spiekermann, Himaghna Bhattacharjee, Dionisios G. Vlachos, William H. Green Jr.:
Machine Learning Validation via Rational Dataset Sampling with astartes. 5996 - Sylvain Barbot:
Motorcycle: A spectral boundary-integral method for seismic cycles on multiple faults. 5097 - Thomas Donoghue, Sandra Maesta-Pereira, Claire Zhixian Han, Salman Ehtesham Qasim, Joshua Jacobs:
spiketools: a Python package for analyzing single-unit neural activity. 5268 - Yen-Ju Lu, Xuankai Chang, Chenda Li, Wangyou Zhang, Samuele Cornell, Zhaoheng Ni, Yoshiki Masuyama, Brian Yan, Robin Scheibler, Zhong-Qiu Wang, Yu Tsao, Yanmin Qian, Shinji Watanabe:
Software Design and User Interface of ESPnet-SE++: Speech Enhancement for Robust Speech Processing. 5403 - Matthieu Gousseff, Erwan Bocher, Jérémy Bernard, Elisabeth Wiederhold:
lczexplore: an R package to explore Local Climate Zone classifications. 5445 - Nicolas Renaud:
QMCTorch: a PyTorch Implementation of Real-Space Quantum Monte Carlo Simulations of Molecular Systems. 5472 - Dominic Létourneau, Simon Brière, Marc-Antoine Maheux, Cédric Godin, Philippe Warren, Gabriel Lauzier, Ian-Mathieu Joly, Jérémie Bourque, Philippe Arsenault, Cynthia Vilanova, Michel Tousignant, François Michaud:
OpenTera: A Framework for Telehealth Applications. 5497 - Socorro Dominguez Vidaña, Simon J. Goring:
neotoma2: An R package to access data from the Neotoma Paleoecology Database. 5561
Volume 8, Number 92, December 2023
- Nikita Beliy, Camille Guillemin, Emeline Pommier, Grégory Hammad, Christophe Phillips:
Bidsme: expandable BIDS-ifier of brain imagery datasets. 5575 - Olivier Binette, Jerome P. Reiter:
ER-Evaluation: End-to-End Evaluation of Entity Resolution Systems. 5619 - Akash Dhruv:
BoxKit: A Python library to manage analysis of block-structured simulation datasets. 5649 - Liam Booth, Aziz U. R. Asghar, Anthony D. Bateson:
PyBCI: A Python Package for Brain-Computer Interface (BCI) Design. 5706 - Diego Hernangómez:
Using the tidyverse with terra objects: the tidyterra package. 5751 - Kirk L. Bonney, Thushara Gunda, Michael W. Hopwood, Hector Mendoza, Nicole D. Jackson:
pvOps: a Python package for empirical analysis of photovoltaic field data. 5755 - Yan-Kai Chen, Douglas R. Houston, Manfred Auer, Steven R. Shave:
OpenFEPOPS: A Python implementation of the FEPOPS molecular similarity technique. 5763 - Jose A. Perea, Luis Scoccola, Christopher J. Tralie:
DREiMac: Dimensionality Reduction with Eilenberg-MacLane Coordinates. 5791 - Stefano Rolfo, Cédric Flageul, Paul Bartholomew, Filippo Spiga, Sylvain Laizet:
The 2DECOMP&FFT library: an update with new CPU/GPU capabilities. 5813 - Bernd Hofmann, Paula Respondek, Simon B. Adrian:
SphericalScattering: A Julia Package for Electromagnetic Scattering from Spherical Objects. 5820 - Alexander Power:
BoboCEP: a Fault-Tolerant Complex Event Processing Engine for Edge Computing in Internet of Things. 5858 - Maxime Lucas, Alex Townsend-Teague, Matteo Neri, Simone Poetto, Arthur Morris, Bianca Habermann, Laurent Tichit:
Phasik: a Python package to identify system states in partially temporal networks. 5872 - Kosuke Tahara:
MAHOS: Measurement Automation Handling and Orchestration System. 5938 - Marios Kyriakou, Marios Demetriades, Stelios G. Vrachimis, Demetrios G. Eliades, Marios M. Polycarpou:
EPyT: An EPANET-Python Toolkit for Smart Water Network Simulations. 5947 - James R. Kerns:
Pylinac: Image analysis for routine quality assurance in radiotherapy. 6001
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