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:
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