Package: pique (1.0-6)

[ Source: pique  ]

software pipeline for performing genome wide association studies

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.

Other Packages Related to pique

• dep: eigensoft

  Reduktion af befolkningsbias for genetiske analyser

• dep: emmax

  Genetisk oversættelse der tager højde for populationsstruktur

• dep: libfile-slurp-perl

  Enkelkalds læs og skriv-filrutiner

• dep: libparallel-forkmanager-perl

  Simpel parallel behandlingshåndtering til fork for Perl

• dep: libreadonly-perl

  Facilitet for oprettelse af skrivebeskyttede skalarer, array'er og hasher

• dep: perl

  Larry Walls praktiske uddragnings- og rapportsprog (Perl)

• dep: plink

  Værktøjssæt til associationsanalyse for hele genomer

• dep: r-base-core

  GNU R-kerne af statistisk beregning og grafiksystem

• dep: r-bioc-multtest

  Biocunductor resampling-baseret flerhypotesetest

• dep: r-cran-forecast

  GNU R-prognosefunktioner for tidsserier og lineære modeller

• dep: r-cran-getopt

  GNU R-pakke der tilbyder funktionalitet på kommandolinjen til fortolkning

• dep: r-cran-optparse

  GNU/R-fortolker for kommandolinjetilvalg

• dep: r-cran-uroot

  GNU R-enhedsroottest for sæsontidsserier

Download pique

Download for all available architectures

Architecture	Package Size	Installed Size	Files
all	19.9 kB	86.0 kB	[list of files]