EQP specifications

Unique identifier:
OMICS_12182
Software type:
Pipeline/Workflow
Restrictions to use:
None
Operating system:
Unix/Linux
License:
Apache License version 2.0
Version:
2.1.0
Requirements:
copy, gettext, gzip, numpy, os, re, sets, sys, textwrap, warnings, samtools, bedtools, bowtie, Univa® Grid Engine
Name:
Exon Quantification Pipeline
Interface:
Command line interface
Input data:
EQP performs the steps of alignment and quantification to generate these three types of counts. For the analysis, EQP requires the sequencing reads (either in Fastq format or pre-aligned in SAM/BAM format to the reference genome), the genome of the species in Fasta format, the transcript sequences in Fasta format, and the corresponding gene, transcript and exon annotation in a GTF file.
Programming languages:
Java, Python
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes

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EQP support

Documentation

Maintainer

  • Sven Schuierer <>

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Publications

Institution(s)

Novartis Institutes for Biomedical Research, Basel, Switzerland

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