Pathway analysis based on Genome-Wide Association Study (GWAS) data has become popular as a secondary analysis strategy. Although many pathway analysis tools have been developed for case-control study, there is no tool that can use all information from raw genotypes in general nuclear families. We developed the Pathway-PDT, which uses the framework of Pedigree Disequilibrium Test (PDT) for general family data, to perform pathway analysis.

Availability and implementation: Pathway-PDT is implemented in C++ with POSIX threads (pthreads). Binaries (Windows) and source codes with makefile (Linux) are available.

Contact: rchung@nhri.org.tw

Citation:
Yo Son Park, Michael Schmidt, Eden R. Martin, Margaret A. Pericak-Vance and Ren-Hua Chung (2013), Pathway-PDT: a flexible pathway analysis tool for nuclear families, BMC Bioinformatics, 14:267

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License

GNU General Public License version 2.0 (GPLv2)

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Additional Project Details

Intended Audience

Science/Research

User Interface

Command-line

Programming Language

C++

Registered

2013-03-11
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