BRAT
Computational Tool
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General Information
DescriptionBisulfite-treated reads analysis tool
Homepagehttp://compbio.cs.ucr.edu/brat/
Publications
BRAT: bisulfite-treated reads analysis tool
Elena Y. Harris; Nadia Ponts; Aleksandr Levchuk; Karine Le Roch; Stefano Lonardi
Summary: We present a new, accurate and efficient tool for mapping short reads obtained from the Illumina Genome Analyzer following sodium bisulfite conversion. Our tool, BRAT, supports single and paired-end reads and handles input files containing reads and mates of different lengths. BRAT is faster, maps more unique paired-end reads and has higher accuracy than existing programs. The software package includes tools to end-trim low-quality bases of the reads and to report nucleotide counts for mapped reads on the reference genome.
Availability: The source code is freely available for download at http://compbio.cs.ucr.edu/brat/ and is distributed as Open Source software under the GPLv3.0.
Contact: elenah@cs.ucr.edu
DOI: https://doi.org/10.1093/bioinformatics/btp706
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