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.
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
if (FALSE) {
## Read RABBIT data for barley.
genoFile <- system.file("extdata/barley", "barley_magicReconstruct.zip",
package = "statgenIBD")
barleyIBD <- readRABBIT(unzip(genoFile, exdir = tempdir()))
}