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AffyPipe

A software tool combining all Affymetrix software. It also allows editing of SNP probe classes directly and to export genotypes in PLINK format.

Topic

Genotype and phenotype, DNA polymorphism, Population genomics

Details

Operation: Genotyping, SNP detection
Software interface: Command-line interface
Language: Python
Operating system: Linux, Mac OS X
License: GNU GPL

Cost

Version name: -

Credit: Nicolazzi EL, Iamartino D, Williams JL.
Contact: Ezequiel Nicolazzie ezequiel.nicolazzie at tecnoparco.org
Collection: -

Publications

Nicolazzi EL, Iamartino D, Williams JL "AffyPipe: an open-source pipeline for Affymetrix Axiom genotyping workflow." Bioinformatics 2014; 30(21):3118-9 https://doi.org/10.1093/bioinformatics/btu486
PMID: 25028724
PMCID: PMC4609010

Download and documentation

Source: https://github.com/nicolazzie/AffyPipe
Documentation: https://github.com/nicolazzie/AffyPipe
Home page: http://bioinformatics.tecnoparco.org/SNP
chimp/index.php/links

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