Roary: Rapid large-scale prokaryote pan genome analysis
Roary: Rapid large-scale prokaryote pan genome analysis
ABSTRACT SummaryA typical prokaryote population sequencing study can now consist of hundreds or thousands of isolates. Interrogating these datasets can provide detailed insights into the genetic structure of of prokaryotic genomes. We introduce Roary, a tool that rapidly builds large-scale pan genomes, identifying the core and dispensable accessory genes. Roary makes construction of the pan genome of thousands of prokaryote samples possible on a standard desktop without compromising on the accuracy of results. Using a single CPU Roary can produce a pan genome consisting of 1000 isolates in 4.5 hours using 13 GB of RAM, with further speedups possible using multiple processors. Availability and implementationRoary is implemented in Perl and is freely available under an open source GPLv3 license from http://sanger-pathogens.github.io/Roary Contactroary@sanger.ac.uk Supplementary informationSupplementary data are available at Bioinformatics online.
Page Andrew J.、Reuter Sandra、Keane Jacqueline A.、Holden Matthew T. G.、Wong Vanessa K.、Parkhill Julian、Cummins Carla A.、Fookes Maria、Hunt Martin
Pathogen Genomics, The Wellcome Trust Sanger InstituteDepartment of Medicine, University of CambridgePathogen Genomics, The Wellcome Trust Sanger InstituteSchool of MedicinePathogen Genomics, The Wellcome Trust Sanger Institute||Department of Medicine, University of CambridgePathogen Genomics, The Wellcome Trust Sanger InstitutePathogen Genomics, The Wellcome Trust Sanger InstitutePathogen Genomics, The Wellcome Trust Sanger InstitutePathogen Genomics, The Wellcome Trust Sanger Institute
微生物学生物科学研究方法、生物科学研究技术分子生物学
Page Andrew J.,Reuter Sandra,Keane Jacqueline A.,Holden Matthew T. G.,Wong Vanessa K.,Parkhill Julian,Cummins Carla A.,Fookes Maria,Hunt Martin.Roary: Rapid large-scale prokaryote pan genome analysis[EB/OL].(2025-03-28)[2025-07-25].https://www.biorxiv.org/content/10.1101/019315.点此复制
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