ReviSTER (Revise Simple Tandem repeat Error Reads) is an automated pipeline using a local mapping reference reconstruction method to revise mismapped (mapped to incorrect position) or partially misaligned (mapped to correct position but one of ends misaligned) reads at STR (Simple Tandem Repeat) loci. It takes FASTQ-formatted files, a reference sequence file and a list file containing STR locations as inputs and utilizes BWA as an initial mapping program.
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Bioinformatics. 2013 Jul 15;29(14):1734-41. doi: 10.1093/bioinformatics/btt277. Epub 2013 May 15.
ReviSTER: an automated pipeline to revise misaligned reads to simple tandem repeats.
Tae H1, McMahon KW, Settlage RE, Bavarva JH, Garner HR.