DNA Barcode Deconvolution

This is a software library to run the JCVI barcode deconvolution pipeline using Sun Grid Engine, or optionally without the use of a grid.

DNA Barcode Deconvolution

This is a software library to run the JCVI barcode deconvolution pipeline using Sun Grid Engine, or optionally without the use of a grid.

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DNA Barcode Deconvolution software deconvolves a FASTA, FASTQ, or SFF file based on the barcode sequences including SISPA (Sequence-Independent, Single-Primer Amplification) barcode sequences, as determined by running fuzznuc to find the best hits of read to barcode sequences. The results are a report of trim points, and a list of barcode fasta files with each entry representing a read sequence that has its unambiguous best hit to the bar code. The bar code sequences are trimmed by default, unless otherwise specified.

This software is open-source and available free of charge subject to the GNU General Public License, version 2.

Funding

This project has been funded in whole or part with federal funds from the National Institute of Allergy and Infectious Diseases, National Institutes of Health, Department of Health and Human Services under contract number HHSN272200900007C.