RUbioSeq Icon

RUbioSeq

Add a Review
6 Downloads (This Week)
Last Update:
Download RUbioSeq-3.2.1-ubuntu-12.10-desktop…iso
Browse All Files
BSD Linux

Description

The vast number of data produced by next-generation sequencing (NGS) 
techniques poses significant computational challenges and many computational steps are required to translate this output into high-quality results. . Developing a workflow able to perform all stages in an automatic and reliable way is crucial to eliminate manual steps and to speed up result generation.
Here, we present a variant calling workflow executed in a HPC platform, which automatically executes all involved stages in this process using state-of-art software. Briefly, our process includes (a) short-read alignment with a combination of BWA and BFAST aligners, (b) a GATK-based variant calling protocol for indels and SNPs[3] (c) SNP effect predicto to annotate the variants. Our program accepts raw data in Fastq format from Illumina platform and generates a result file with the variants and its biological impact prediction ranked by detection quality score.

RUbioSeq Web Site

Categories

Bio-Informatics

Update Notifications





Write a Review

User Reviews

Be the first to post a review of RUbioSeq!

Additional Project Details

Programming Language

Perl

Registered

2012-07-09
Screenshots can attract more users to your project.
Features can attract more users to your project.

Icons must be PNG, GIF, or JPEG and less than 1 MiB in size. They will be displayed as 48x48 images.