SeqAssist: a novel toolkit for preliminary analysis of next-generation sequencing data.

ABSTRACT:

Background

While next-generation sequencing (NGS) technologies are rapidly advancing, an area that lags behind is the development of efficient and user-friendly tools for preliminary analysis of massive NGS data. As an effort to fill this gap to keep up with the fast pace of technological advancement and to accelerate data-to-results turnaround, we developed a novel software package named SeqAssist ("Sequencing Assistant" or SA).

Results

SeqAssist takes NGS-generated FASTQ files as the input, employs the BWA-MEM aligner for sequence alignment, and aims to provide a quick overview and basic statistics of NGS data. It consists of three separate workflows: (1) the SA_RunStats workflow generates basic statistics about an NGS dataset, including numbers of raw, cleaned, redundant

SUBMITTER: Peng Y 

PROVIDER: S-EPMC4251038 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature