EQP specifications


Unique identifier OMICS_12182
Name EQP
Alternative name Exon Quantification Pipeline
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
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.
Operating system Unix/Linux
Programming languages Java, Python
License Apache License version 2.0
Computer skills Advanced
Version 2.1.0
Stability Stable
Requirements copy, gettext, gzip, numpy, os, re, sets, sys, textwrap, warnings, samtools, bedtools, bowtie, Univa® Grid Engine
Maintained Yes


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  • person_outline Sven Schuierer <>

EQP article

EQP institution(s)
Novartis Institutes for Biomedical Research, Basel, Switzerland

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