VASP specifications

Information


Unique identifier OMICS_08186
Name VASP
Alternative name Variant Analysis of Sequenced Pedigrees
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Two input files are required: a pedigree (PED) file representing pedigree structure and a variant call format (VCF) file containing variant information.
Operating system Unix/Linux
Programming languages Perl
Computer skills Advanced
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Versioning


No version available

Documentation


Maintainer


  • person_outline Matthew A. Field

Publication for Variant Analysis of Sequenced Pedigrees

VASP citations

 (2)
library_books

Impact of the G84E variant on HOXB13 gene and protein expression in formalin fixed, paraffin embedded prostate tumours

2017
Sci Rep
PMCID: 5736598
PMID: 29259341
DOI: 10.1038/s41598-017-18217-w

[…] k, USA, on the HiSeq 2500 s or the Kinghorn Centre for Clinical Genomics, Australia, on the Illumina HiSeq XTM Ten platform using the TruSeq Nano library preparation. Data had been analysed using the Variant Analysis of Sequenced Pedigrees (VASP) analytical pipeline, developed specifically to detect disease causing variants in sequenced pedigrees,. The presence of the HOXB13 G84E variant was exami […]

library_books

A deleterious RNF43 germline mutation in a severely affected serrated polyposis kindred

2015
Hum Genome Var
PMCID: 4785559
PMID: 27081527
DOI: 10.1038/hgv.2015.13

[…] d SIFT scores for estimating the effect of amino acid substitutions on protein structure and function. Deleterious SNVs in cancer genes were assessed against the COSMIC database and assigned a value. Variant analysis of sequenced pedigrees (pVAAST) was performed treating subject 002 as ‘unaffected’ or ‘affected’. […]

VASP institution(s)
Department of Immunology, John Curtin School of Medical Research, Australian National University, Canberra City, Australia
VASP funding source(s)
This work was supported by National Health and Medical Research Council Australia Fellowship 585490, National Institutes of Health [grant number U19 AI100627] and Bioplatforms Australia.

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