J. Gregory Caporaso

Publication Activity (10 Years)

Years Active: 2005-2023
Publications (10 Years): 5

Top Topics

Redescription Mining

Lessons Learned

K Nearest Neighbour

Individual Classifiers

Top Venues

PLoS Comput. Biol.

J. Open Source Softw.

Publications

Awan Afiaz, Andrey Ivanov, John Chamberlin, David Hanauer, Candace Savonen, Mary J. Goldman, Martin Morgan, Michael Reich, Alexander Getka, Aaron Holmes, Sarthak Pati, Dan Knight, Paul C. Boutros, Spyridon Bakas, J. Gregory Caporaso, Guilherme Del Fiol, Harry Hochheiser, Brian Haas, Patrick D. Schloss, James A. Eddy, Jake Albrecht, Andrey Fedorov, Levi Waldron, Ava M. Hoffman, Richard L. Bradshaw, Jeffrey T. Leek, Carrie Wright
Evaluation of software impact designed for biomedical research: Are we measuring what's meaningful? CoRR (2023)
Christopher R. Keefe, Matthew R. Dillon, Elizabeth Gehret, Chloe Herman, Mary Jewell, Colin V. Wood, Evan Bolyen, J. Gregory Caporaso
Facilitating bioinformatics reproducibility with QIIME 2 Provenance Replay. PLoS Comput. Biol. 19 (11) (2023)
Nicholas A. Bokulich, Pawel Laniewski, Anja Adamov, Dana M. Chase, J. Gregory Caporaso, Melissa M. Herbst-Kralovetz
Multi-omics data integration reveals metabolome as the top predictor of the cervicovaginal microenvironment. PLoS Comput. Biol. 18 (2) (2022)
Matthew R. Dillon, Evan Bolyen, Anja Adamov, Aeriel Belk, Emily Borsom, Zachary Burcham, Justine W. Debelius, Heather Deel, Alex Emmons, Mehrbod Estaki, Chloe Herman, Christopher R. Keefe, Jamie T. Morton, Renato R. M. Oliveira, Andrew Sanchez, Anthony Simard, Yoshiki Vazquez-Baeza, Michal Ziemski, Hazuki E. Miwa, Terry A. Kerere, Carline Coote, Richard Bonneau, Rob Knight, Guilherme Oliveira, Piraveen Gopalasingam, Benjamin D. Kaehler, Emily K. Cope, Jessica L. Metcalf, Michael S. Robeson II, Nicholas A. Bokulich, J. Gregory Caporaso
Experiences and lessons learned from two virtual, hands-on microbiome bioinformatics workshops. PLoS Comput. Biol. 17 (6) (2021)
Nicholas A. Bokulich, Matthew R. Dillon, Evan Bolyen, Benjamin D. Kaehler, Gavin A. Huttley, J. Gregory Caporaso
q2-sample-classifier: machine-learning tools for microbiome classification and regression. J. Open Source Softw. 3 (30) (2018)
Meg Pirrung, Ryan Kennedy, J. Gregory Caporaso, Jesse Stombaugh, Doug Wendel, Rob Knight
TopiaryExplorer: visualizing large phylogenetic trees with environmental metadata. Bioinform. 27 (21) (2011)
William A. Walters, J. Gregory Caporaso, Christian L. Lauber, Donna Berg-Lyons, Noah Fierer, Rob Knight
design and taxonomic analysis of barcoded polymerase chain reaction primers. Bioinform. 27 (8) (2011)
J. Gregory Caporaso, Kyle Bittinger, Frederic D. Bushman, Todd Z. DeSantis, Gary L. Andersen, Rob Knight
PyNAST: a flexible tool for aligning sequences to a template alignment. Bioinform. 26 (2) (2010)
J. Gregory Caporaso, Nita Deshpande, J. Lynn Fink, Philip E. Bourne, K. Bretonnel Cohen, Lawrence Hunter
Intrinsic Evaluation of Text Mining Tools May Not Predict Performance on Realistic Tasks. Pacific Symposium on Biocomputing (2008)
J. Gregory Caporaso, William A. Baumgartner Jr., David A. Randolph, K. Bretonnel Cohen, Lawrence Hunter
MutationFinder: a high-performance system for extracting point mutation mentions from text. Bioinform. 23 (14) (2007)
J. Gregory Caporaso, William A. Baumgartner Jr., David A. Randolph, K. Bretonnel Cohen, Lawrence Hunter
Rapid Pattern Development for Concept Recognition Systems: Application to Point mutations. J. Bioinform. Comput. Biol. 5 (6) (2007)
J. Gregory Caporaso, William A. Baumgartner Jr., Hyunmin Kim, Zhiyong Lu, Helen L. Johnson, Olga Medvedeva, Anna Lindemann, Lynne M. Fox, Elizabeth K. White, K. Bretonnel Cohen, Lawrence Hunter
Concept Recognition, Information Retrieval, and Machine Learning in Genomics Question-Answering. TREC (2006)
J. Gregory Caporaso, William A. Baumgartner Jr., K. Bretonnel Cohen, Helen L. Johnson, Jesse Paquette, Lawrence Hunter
Concept Recognition and the TREC Genomics Tasks. TREC (2005)