Software for pre-processing Illumina next-generation sequencing short read sequences.

ABSTRACT:

Background

When compared to Sanger sequencing technology, next-generation sequencing (NGS) technologies are hindered by shorter sequence read length, higher base-call error rate, non-uniform coverage, and platform-specific sequencing artifacts. These characteristics lower the quality of their downstream analyses, e.g. de novo and reference-based assembly, by introducing sequencing artifacts and errors that may contribute to incorrect interpretation of data. Although many tools have been developed for quality control and pre-processing of NGS data, none of them provide flexible and comprehensive trimming options in conjunction with parallel processing to expedite pre-processing of large NGS datasets.

Methods

We developed ngsShoRT (next-generation sequencing Short Reads Trimme

SUBMITTER: Chen C 

PROVIDER: S-EPMC4064128 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature