Ngs_backbone: a pipeline for read cleaning, mapping and SNP calling using next generation sequence.

ABSTRACT:

Background

The possibilities offered by next generation sequencing (NGS) platforms are revolutionizing biotechnological laboratories. Moreover, the combination of NGS sequencing and affordable high-throughput genotyping technologies is facilitating the rapid discovery and use of SNPs in non-model species. However, this abundance of sequences and polymorphisms creates new software needs. To fulfill these needs, we have developed a powerful, yet easy-to-use application.

Results

The ngs_backbone software is a parallel pipeline capable of analyzing Sanger, 454, Illumina and SOLiD (Sequencing by Oligonucleotide Ligation and Detection) sequence reads. Its main supported analyses are: read cleaning, transcriptome assembly and annotation, read mapping and single nucleotide polymorph

SUBMITTER: Blanca JM 

PROVIDER: S-EPMC3124440 | biostudies-literature | 2011 Jun

REPOSITORIES: biostudies-literature