run_estimap: Estimate map from cross/genotype data.

In gact/shmootl: QTL Analysis Utilities for Yeast

Description

This script reads an R/qtl cross or genotype file, and outputs a map estimated from the input genotype data. Note that a genetic map cannot be estimated from enumerated genotypes, as these are generated independently for each marker.

Usage

run_estimap(datafile = NA_character_, mapfile = NA_character_,
  n.cluster = 1L, error.prob = 1e-04, map.function = c("haldane",
  "kosambi", "c-f", "morgan"), jittermap = FALSE)

Arguments

datafile	input cross/geno CSV file [required]
mapfile	output map CSV file [required]
n.cluster	number of threads
error.prob	genotyping error rate
map.function	genetic map function
jittermap	jitter map positions

See Also

Other pipeline functions: run_annoqtl, run_digest, run_interptimes, run_makecross, run_makegeno, run_prep, run_pullmap, run_pushmap, run_recode, run_report, run_scanone, run_scantwo

gact/shmootl documentation built on Nov. 11, 2021, 6:23 p.m.