pique
software pipeline for performing genome wide association studies
Command lineScience
Not tested on a device yet. What that means
Commands in the package
GWAS_boxcoxGWAS_manhattanplotspique-inputpique-run
About pique
From Debian's package description
PIQUE is a software pipeline for performing genome wide association studies (GWAS). The main function of PIQUE is to provide ‘convenience’ wrappers that allow users to perform GWAS using the popular program EMMAX (Kang et al., 2010) without the need to be familiar with all of the software tools used to generate the required EMMAX input files. PIQUE will also perform a number of quality control steps prior to running EMMAX, ensuring that the various input data files are in the correct format. PIQUE proceeds in two main stages although there are multiple entry and exit points from which the pipeline can be run. The first stage consists of running the “pique-input” program, which can read genotype and phenotype information in several different formats and generates all the necessary input files required to run EMMAX. The second step in the pipeline uses the “pique-run” program to actually run EMMAX using the files generated by “pique-input” (or pre-existing user-supplied input files) to perform the GWAS and output the analysis summary files.
From Debian's description of the pique package, under that package's license.
Dependencies
Depends on
perlr-base-coreemmaxplink1.9eigensoftlibreadonly-perllibparallel-forkmanager-perllibfile-slurp-perlr-cran-getoptr-cran-forecastr-bioc-multtestr-cran-optparser-cran-uroot
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Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the pique package, under that package's license.
- Description: Debian's description of the pique package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
More in About the catalog.