birap

We have hosted the application birap in order to run this application in our online workstations with Wine or directly.

Quick description about birap:

BIRAP (Bacterial Intergenic Region Analysis Pipeline) is an open source, easy to use Perl pipeline that can be used to re-annotate bacterial genomes using experimental data. The tool integrates expression profile derived from RNA-seq and/or proteogenomics, compares it with existing in silico annotation and helps validate annotation, identify novel protein coding regions, putative non-coding RNA as well as help correct er-rors in the existing annotation. The pipeline requires �pileup� output from SAMtools for RNA-seq data and peptide/ePST locus file (GFF) from the Proteogenomic Mapping tool for prote-ogenomics data along with the genome and existing in silico annotation. When information regarding the locus of promot-ers and terminators in the genome (in .coords format) is pro-vided, the pipeline will also help identify non-coding RNA.

Features:

• intergenic region analysis of bacterial genomes
• re-annotation of bacterial genomes
• small RNA (sRNA) detection
• RNA-seq
• Proteogenomics

Audience: Science/Research.
User interface: Console/Terminal, Command-line.
Programming Language: Perl.
Categories: