FLEXBAR-Flexible Barcode and Adapter Processing for Next-Generation Sequencing Platforms.

ABSTRACT: Quantitative and systems biology approaches benefit from the unprecedented depth of next-generation sequencing. A typical experiment yields millions of short reads, which oftentimes carry particular sequence tags. These tags may be: (a) specific to the sequencing platform and library construction method (e.g., adapter sequences); (b) have been introduced by experimental design (e.g., sample barcodes); or (c) constitute some biological signal (e.g., splice leader sequences in nematodes). Our software FLEXBAR enables accurate recognition, sorting and trimming of sequence tags with maximal flexibility, based on exact overlap sequence alignment. The software supports data formats from all current sequencing platforms, including color-space reads. FLEXBAR maintains read pairings and processes s

SUBMITTER: Dodt M 

PROVIDER: S-EPMC4009805 | biostudies-literature | 2012 Dec

REPOSITORIES: biostudies-literature