qtl: map2table – R documentation

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Documentation

qtl

map2table

Convert genetic map from list to table.

Description

Convert a map object (as a list) to a table (as a data frame).

Usage

map2table(map, chr)

Arguments

`map`	A `map` object: a list whose components (corresponding to chromosomes) are either vectors of marker positions or matrices with two rows of sex-specific marker positions.
`chr`	Optional vector indicating the chromosomes to consider. This should be a vector of character strings referring to chromosomes by name; numeric values are converted to strings. Refer to chromosomes with a preceding `-` to have all chromosomes but those considered. A logical (TRUE/FALSE) vector may also be used.

Value

A data frame with two or three columns: chromosome and sex-averaged position, or chromosome, female position, and male position.

The row names are the marker names.

Author(s)

Karl W Broman, broman@wisc.edu

Examples

data(fake.f2)
map <- pull.map(fake.f2)
map_as_tab <- map2table(map)

qtl

Tools for Analyzing QTL Experiments

v1.48-1

GPL-3

Authors

Karl W Broman <broman@wisc.edu> and Hao Wu, with ideas from Gary Churchill and Saunak Sen and contributions from Danny Arends, Robert Corty, Timothee Flutre, Ritsert Jansen, Pjotr Prins, Lars Ronnegard, Rohan Shah, Laura Shannon, Quoc Tran, Aaron Wolen, Brian Yandell, and R Core Team

Initial release

2021-03-24