rqtl_launch: A Function That Scans Genome to Detect QTLs (based on R...

In fchuffar/ptlmapper: Useful genetic tool allowing to discriminate individuals by comparing the distribution of their phenotype and to map the genetic loci responsible for specific distributions

A Function That Scans Genome to Detect QTLs (based on R package 'qtl')

Description

This function embeds R package 'qtl'. It scans the genome to detect QTLs using 'ptlmapper' data structures.

Usage

rqtl_launch(genodata_ptl, pheno_hists, kanto_analysis = NULL,
  mmoments_analysis = NULL, nb_perm = 1000, errs = 0.05,
  SKEWNESS_AND_KURTOSIS = FALSE)

Arguments

genodata_ptl	The preprocessed genodata. Typically, the output of 'preprocess_genodata' function.
pheno_hists	A list of object containing mean and var attributes. Typically, the outpout of the 'build_pheno_hists' function.
kanto_analysis	Output of 'ptl_scan' function used with the method "kanto".
mmoments_analysis	Output of 'ptl_scan' function used with the method "mmoments".
nb_perm	An integer that specifies the number of permuation to do.
errs	A vector of integer (error) that will be used to compute threshold from the permutation test.
SKEWNESS_AND_KURTOSIS	A boolean that specifies if skewness and kurtosis QTl need to be scanned.

fchuffar/ptlmapper documentation built on March 27, 2024, 3:28 p.m.