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Variation Annotation GENeraTor VAGrENT

A suite of perl modules that compares genomic variations with reference genome annotations and generates the possible effects each variant may have on the transcripts it overlaps. VAGrENT evaluates each variation/transcript combination and describes the effects in the mRNA, CDS and protein sequence contexts. It provides details of the sequence and position of the change within the transcript/protein as well as Sequence Ontology terms to classify its consequences.

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VAGrENT classification

  • Animals
    • Homo sapiens

VAGrENT specifications

Software type:
Package/Module
Restrictions to use:
None
Programming languages:
Perl
Stability:
Stable
Maintained:
Yes
Interface:
Command line interface
Operating system:
Unix/Linux
Computer skills:
Advanced
Requirements:
SAMtools, tabix, vcftools

VAGrENT distribution

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VAGrENT support

Maintainer

  • PICNIC Team <>

Link to literature

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