BraTB is a flexible pipeline for detecting antimicrobial resistance in Mycobacterium tuberculosis.
BraTB Analysis Pipeline is the main per-isolate workflow in BraTB. Built with Nextflow, input FASTQs (local or available from SRA/ENA) are put through numerous analyses, including quality control, assembly, annotation, minmer sketch queries, sequence typing, and more.
BraTB Tools are set as independent workflows for comparative analyses. The comparative analyses may include summary reports, pan-genome, or phylogenetic tree construction. Using the predictable output structure of BraTB, you can choose which samples to include for processing with a BraTB Tool.
BraTB was inspired by Staphopia and MAGMA MAGMA
Documentation for BraTB is available here.
If you have used BraTB in your work, please be sure to cite any datasets or tools you may have used. A list of each dataset/tool used by BraTB has been made available.
If a citation needs to be updated, please let me know!
BraTB is genuinely a case of "standing upon the shoulders of giants". Nearly every component of BraTB was created by others and made freely available to the public.
Your feedback is precious! If you run into any issues using BraTB, have questions, or have some ideas to improve BraTB, I highly encourage you to submit them to the Issue Tracker.
Zenodo
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Louise Cerdeira
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Twitter: @louisecerdeira
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Naila Soler
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Taiana Tainá
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Ana Márcia Guimarães
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Twitter: @anaguimaraes
Support for this project came from a CNPq.