readRABBIT: Read IBD probabilities
In statgenIBD: Calculation of IBD Probabilities

readRABBIT

R Documentation

Read IBD probabilities

Description

Read a file with IBD probabilities computed by the RABBIT software package. It is possible to additionally read the pedigree file that is also used by RABBIT. Reading this file allows for plotting the pedigree.

Usage

readRABBIT(infile, pedFile = NULL)

Arguments

`infile`	A character string, a link to a .csv file with IBD probabilities. Compressed .csv files with extension ".gz" or ".bz2" are supported as well.
`pedFile`	A character string, a link to a .csv file with pedigree information as used by RABBIT as input. Compressed .csv files with extension ".gz" or ".bz2" are supported as well.

Value

An IBDprob object with map and markers corresponding to the imported information in the imported .csv file.

References

Zheng, Chaozhi, Martin P Boer, and Fred A Van Eeuwijk. “Recursive Algorithms for Modeling Genomic Ancestral Origins in a Fixed Pedigree.” G3 Genes|Genomes|Genetics 8 (10): 3231–45. https://doi.org/10.1534/G3.118.200340.

Examples

## Not run: 
## Read RABBIT data for barley.
genoFile <- system.file("extdata/barley", "barley_magicReconstruct.zip",
                       package = "statgenIBD")
barleyIBD <- readRABBIT(unzip(genoFile, exdir = tempdir()))

## End(Not run)

statgenIBD documentation built on May 29, 2024, 1:32 a.m.