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ADMIXPIPE

ADMIXPIPE

ADMIXPIPE is a pipeline tool for integration of ADMIXTURE analysis with variant call format (VCF) filtering tools to generate file types that can be analyzed by CLUMPAK . Dependencies: PLINK 1.9 beta 4.5 or newer, VCFtools, Admixture

Topic

Genetics, Population genetics

Details

  • Operation: Genetic variation analysis
  • Software interface: Command-line user interface
  • Language: Python
  • Operating system: Mac OS X, Linux
  • License: GNU General Public License v3.0
  • Cost: Free
  • Version name: -
  • Credit: The Arkansas High Performance Computing Center (AHPCC), the NSF Jetstream XSEDE Resource
  • Contact: Steven M Mussmann smussmann _at_ gmail.com
  • Collection: -

Publications

Mussmann SM, Douglas MR, Chafin TK, Douglas ME "ADMIXPIPE: population analyses in ADMIXTURE for non-model organisms" BMC Bioinformatics. 2020 Jul 29;21(1):337 https://doi.org/10.1186/s12859-020-03701-4
PMID: 32727359
PMCID: PMC7391514


Download and documentation




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