VarAFT statistics

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Citations per year

Number of citations per year for the bioinformatics software tool VarAFT
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Tool usage distribution map

This map represents all the scientific publications referring to VarAFT per scientific context
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Associated diseases

This word cloud represents VarAFT usage per disease context
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Popular tool citations

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Protocols

VarAFT specifications

Information


Unique identifier OMICS_15743
Name VarAFT
Alternative name Variant Annotation and Filter Tool
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input format BAM, VCF
Output format BAM, VCF, TXT
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Advanced
Version 2.06
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Versioning


No version available

Maintainer


  • person_outline Jean Pierre Desvignes

Publication for Variant Annotation and Filter Tool

VarAFT citations

 (2)
call_split

Exome sequencing identifies recurrent BCOR alterations and the absence of KLF2, TNFAIP3 and MYD88 mutations in splenic diffuse red pulp small B cell lymphoma

2017
Haematologica
PMCID: 5622860
PMID: 28751561
DOI: 10.3324/haematol.2016.160192
call_split See protocol

[…] line (Illumina) (IntegraGen), as well as another pipeline based on BWA-MEM, SAMBAMBA, and GATK (INSERM UMR S910, Marseille, France). Merge analysis, data mining and manual review were performed using VarAFT (http://varaft.eu) and ALAMUT software (Interactive Biosoftware, Rouen, France). To investigate genomic copy number aberrations (e.g., copy number gains and copy number losses), we used the Bio […]

library_books

Comparing targeted exome and whole exome approaches for genetic diagnosis of neuromuscular disorders

2015
PMCID: 4803780
PMID: 27054082
DOI: 10.1016/j.atg.2015.07.006

[…] all the splice variants of RefSeq genes was downloaded from UCSC Genome Browser using Table Browser option (). Coverage and depth statistics for this set of exons were obtained for each sample using VarAFT tool. Sample p54 was excluded from the analysis due to much lower quality of sequencing results obtained. […]


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