PBAP

PBAP (pedigree-based analysis pipeline) is a suite of programs that aids in the analysis of pedigree-based genetic datasets with dense marker panels. It performs quality control, marker selection and file preparation, and sets up files for MORGAN, which can handle analyses for small and large pedigrees. PBAP provides flexibility in selecting markers for linkage panels and can be used with other programs and for downstream analyses.

Topic

Genetics;DNA polymorphism;Population genetics

Detail

  • Operation: Analysis

  • Software interface: Command-line user interface

  • Language: R;Perl;C

  • License: Not stated

  • Cost: Free

  • Version name: 1.0

  • Credit: National Institutes of Health.

  • Input: -

  • Output: -

  • Contact: wijsman@uw.edu;aqnato@uw.edu

  • Collection: -

  • Maturity: -

Publications

  • PBAP: a pipeline for file processing and quality control of pedigree data with dense genetic markers.
  • Nato AQ, et al. PBAP: a pipeline for file processing and quality control of pedigree data with dense genetic markers. PBAP: a pipeline for file processing and quality control of pedigree data with dense genetic markers. 2015; 31:3790-8. doi: 10.1093/bioinformatics/btv444
  • https://doi.org/10.1093/bioinformatics/btv444
  • PMID: 26231429
  • PMC: PMC4668752

Download and documentation

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