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Robert A. Edwards
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2020 – today
- 2024
- [j29]Katelyn McNair, Peter Salamon, Robert A. Edwards, Anca M. Segall:
PRFect: a tool to predict programmed ribosomal frameshifts in prokaryotic and viral genomes. BMC Bioinform. 25(1): 82 (2024) - [j28]Michael J. Roach
, Bradley J. Hart
, Sarah J. Beecroft
, Bhavya Nalagampalli Papudeshi, Laura K. Inglis
, Susanna R. Grigson
, Vijini Mallawaarachchi
, George Bouras
, Robert A. Edwards
:
Koverage: Read-coverage analysis for massive (meta)genomics datasets. J. Open Source Softw. 9(96): 6235 (2024) - 2023
- [j27]Vijini Mallawaarachchi
, Michael J. Roach
, Przemyslaw Decewicz
, Bhavya Nalagampalli Papudeshi, Sarah K. Giles, Susanna R. Grigson
, George Bouras
, Ryan D. Hesse
, Laura K. Inglis
, Abbey L. K. Hutton, Elizabeth A. Dinsdale
, Robert A. Edwards
:
Phables: from fragmented assemblies to high-quality bacteriophage genomes. Bioinform. 39(10) (2023) - [j26]Peter Salamon
, David Salamon, Vito Adrian Cantu, Michelle An, Tyler Perry, Robert A. Edwards
, Anca M. Segall
:
Classification Confidence in Exploratory Learning: A User's Guide. Mach. Learn. Knowl. Extr. 5(3): 803-829 (2023) - 2022
- [j25]Susanna R. Grigson
, Jody C. McKerral
, James G. Mitchell
, Robert A. Edwards
:
Organizing the bacterial annotation space with amino acid sequence embeddings. BMC Bioinform. 23(1): 385 (2022) - [j24]Michael J. Roach
, N. Tessa Pierce-Ward
, Radoslaw Suchecki, Vijini Mallawaarachchi
, Bhavya Nalagampalli Papudeshi, Scott A. Handley, C. Titus Brown, Nathan S. Watson-Haigh
, Robert A. Edwards
:
Ten simple rules and a template for creating workflows-as-applications. PLoS Comput. Biol. 18(12): 1010705 (2022) - [i1]Peter Salamon, David Salamon, Vito Adrian Cantu, Michelle An, Tyler Perry, Robert A. Edwards
, Anca M. Segall:
Estimating Classification Confidence Using Kernel Densities. CoRR abs/2207.06529 (2022) - 2021
- [j23]Felipe Hernandes Coutinho
, Asier Zaragoza-Solas
, Mario López-Pérez
, Jakub Barylski
, Andrzej Zielezinski
, Bas E. Dutilh, Robert A. Edwards
, Francisco Rodríguez-Valera:
RaFAH: Host prediction for viruses of Bacteria and Archaea based on protein content. Patterns 2(7): 100274 (2021) - 2020
- [j22]Vito Adrian Cantu, Peter Salamon, Victor Seguritan
, Jackson Redfield, David Salamon, Robert A. Edwards
, Anca M. Segall
:
PhANNs, a fast and accurate tool and web server to classify phage structural proteins. PLoS Comput. Biol. 16(11): 1007845 (2020)
2010 – 2019
- 2019
- [j21]Carol L. Ecale Zhou, Stephanie Malfatti
, Jeffrey A. Kimbrel
, Casandra Philipson, Katelyn McNair, Theron Hamilton, Robert A. Edwards
, Brian Souza:
multiPhATE: bioinformatics pipeline for functional annotation of phage isolates. Bioinform. 35(21): 4402-4404 (2019) - [j20]Katelyn McNair, Carol Zhou, Elizabeth A. Dinsdale
, Brian Souza, Robert A. Edwards
:
PHANOTATE: a novel approach to gene identification in phage genomes. Bioinform. 35(22): 4537-4542 (2019) - 2018
- [c2]Kyle Levi
, Mats Rynge
, Eroma Abeysinghe, Robert A. Edwards
:
Searching the Sequence Read Archive using Jetstream and Wrangler. PEARC 2018: 50:1-50:7 - 2017
- [j19]Daniel Cuevas, Robert A. Edwards
:
PMAnalyzer: a new web interface for bacterial growth curve analysis. Bioinform. 33(12): 1905-1906 (2017) - [j18]Pedro J. Torres, Robert A. Edwards
, Katelyn McNair:
PARTIE: a partition engine to separate metagenomic and amplicon projects in the Sequence Read Archive. Bioinform. 33(15): 2389-2391 (2017) - 2016
- [j17]Genivaldo Gueiros Z. Silva, Kevin T. Green, Bas E. Dutilh
, Robert A. Edwards
:
SUPER-FOCUS: a tool for agile functional analysis of shotgun metagenomic data. Bioinform. 32(3): 354-361 (2016) - 2014
- [j16]Ross A. Overbeek, Robert Olson, Gordon D. Pusch, Gary J. Olsen, James J. Davis, Terry Disz, Robert A. Edwards
, Svetlana Gerdes, Bruce D. Parrello, Maulik Shukla
, Veronika Vonstein, Alice R. Wattam, Fangfang Xia, Rick Stevens:
The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST). Nucleic Acids Res. 42(Database-Issue): 206-214 (2014) - 2013
- [j15]Genivaldo Gueiros Z. Silva, Bas E. Dutilh
, T. David Matthews, Keri Elkins, Robert Schmieder, Elizabeth A. Dinsdale
, Robert A. Edwards
:
Combining de novo and reference-guided assembly with scaffold_builder. Source Code Biol. Medicine 8: 23 (2013) - 2012
- [j14]Robert Schmieder, Yan Wei Lim, Robert A. Edwards
:
Identification and removal of ribosomal RNA sequences from metatranscriptomes. Bioinform. 28(3): 433-435 (2012) - [j13]Katelyn McNair, Barbara A. Bailey, Robert A. Edwards
:
PHACTS, a computational approach to classifying the lifestyle of phages. Bioinform. 28(5): 614-618 (2012) - [j12]Bas E. Dutilh
, Robert Schmieder, James Nulton, Ben Felts, Peter Salamon, Robert A. Edwards
, John Mokili:
Reference-independent comparative metagenomics using cross-assembly: crAss. Bioinform. 28(24): 3225-3231 (2012) - [j11]Robert A. Edwards
, Robert Olson, Terry Disz, Gordon D. Pusch, Veronika Vonstein, Rick Stevens, Ross A. Overbeek:
Real Time Metagenomics: Using k-mers to annotate metagenomes. Bioinform. 28(24): 3316-3317 (2012) - [j10]Bhakti Dwivedi
, Robert Schmieder, Dawn B. Goldsmith, Robert A. Edwards
, Mya Breitbart
:
PhiSiGns: an online tool to identify signature genes in phages and design PCR primers for examining phage diversity. BMC Bioinform. 13: 37 (2012) - 2011
- [j9]Robert Schmieder, Robert A. Edwards
:
Quality control and preprocessing of metagenomic datasets. Bioinform. 27(6): 863-864 (2011) - [j8]Ramy K. Aziz, Bhakti Dwivedi, Mya Breitbart, Robert A. Edwards
:
Phage Eco-Locator: a web tool for visualization and analysis of phage genomes in metagenomic data sets. BMC Bioinform. 12(S-7): A9 (2011) - 2010
- [j7]Terry Disz, Sajia Akhter, Daniel Cuevas, Robert Olson, Ross A. Overbeek, Veronika Vonstein, Rick Stevens, Robert A. Edwards
:
Accessing the SEED genome databases via Web services API: tools for programmers. BMC Bioinform. 11: 319 (2010) - [j6]Robert Schmieder, Yan Wei Lim, Forest Rohwer
, Robert A. Edwards
:
TagCleaner: Identification and removal of tag sequences from genomic and metagenomic datasets. BMC Bioinform. 11: 341 (2010)
2000 – 2009
- 2009
- [j5]Chad Wagner, Anna Salamon, Robert A. Edwards
, Forest Rohwer, Peter Salamon:
Deviations from Ultrametricity in Phage Protein Distances. Open Syst. Inf. Dyn. 16(1): 75-84 (2009) - [j4]Florent E. Angly, Dana Willner, Alejandra Prieto-Davó
, Robert A. Edwards
, Robert Schmieder, Rebecca Vega-Thurber, Dionysios A. Antonopoulos, Katie Barott
, Matthew T. Cottrell, Christelle Desnues
, Elizabeth A. Dinsdale
, Mike Furlan, Matthew Haynes, Matthew R. Henn, Yongfei Hu, David L. Kirchman, Tracey McDole, John D. McPherson
, Folker Meyer
, R. Michael Miller, Egbert Mundt, Robert K. Naviaux, Beltran Rodriguez-Mueller, Rick Stevens, Linda Wegley, Lixin Zhang
, Baoli Zhu, Forest Rohwer
:
The GAAS Metagenomic Tool and Its Estimations of Viral and Microbial Average Genome Size in Four Major Biomes. PLoS Comput. Biol. 5(12) (2009) - 2008
- [j3]Folker Meyer
, Daniel Paarmann, Mark D'Souza, Robert Olson, Elizabeth M. Glass, Michael Kubal, Tobias Paczian, Alexis A. Rodriguez, Rick Stevens, Andreas Wilke, Jared Wilkening, Robert A. Edwards
:
The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinform. 9 (2008) - 2007
- [j2]Leslie Klis McNeil, Claudia Reich, Ramy K. Aziz
, Daniela Bartels, Matthew Cohoon, Terry Disz, Robert A. Edwards
, Svetlana Gerdes, Kaitlyn Hwang, Michael Kubal, Gohar Rem Margaryan, Folker Meyer
, William Mihalo, Gary J. Olsen, Robert Olson, Andrei Osterman, Daniel Paarmann, Tobias Paczian, Bruce D. Parrello, Gordon D. Pusch, Dmitry A. Rodionov
, Xinghua Shi, Olga Vassieva, Veronika Vonstein, Olga Zagnitko, Fangfang Xia, Jenifer Zinner, Ross A. Overbeek, Rick Stevens:
The National Microbial Pathogen Database Resource (NMPDR): a genomics platform based on subsystem annotation. Nucleic Acids Res. 35(Database-Issue): 347-353 (2007) - 2006
- [j1]Beltran Rodriguez-Brito, Forest Rohwer
, Robert A. Edwards
:
An application of statistics to comparative metagenomics. BMC Bioinform. 7: 162 (2006) - [c1]Lutz Krause
, Naryttza N. Diaz, Daniela Bartels, Robert A. Edwards
, Alfred Pühler
, Forest Rohwer
, Folker Meyer
, Jens Stoye
:
Finding novel genes in bacterial communities isolated from the environment. ISMB (Supplement of Bioinformatics) 2006: 281-289
Coauthor Index
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last updated on 2024-06-10 21:21 CEST by the dblp team
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