Usage
"plot"(x, snps, colors = "DO", chrlen = "mm10", ...) chr.skeletons(chr, chrlen, ...) genomic.points(chr = NULL, loc = NULL) write.genoprob.plots(path = ".", snps)
Arguments
x
Numeric matrix containing the 36 genotype state probabilities generated by calc.genoprob
.
snps
Data.frame containing the SNP locations in prsmth. SNP ID, chromosome, Mb and cM locations in columns 1 through 4, respectively.
colors
Character string containing "DO" for the DO. FALSEor all other crosses, a data.frame containing single letter codes, strain names and colors for the founders in columns 1 through 3, respectively.
chrlen
Character string containing the genome for the chromosome lengths. Default = mm10.
genome
Character string containing the genome for the chromosome lengths. Default = mm10.
chr
Vector of chromosome IDs.
path
Character string containing the path to the posterior genotype probability files in R binary format (i.e. *.Rdata).
loc
Numeric vector of genome locations in Mb of same length as chr.
...
Additional arguments to be passed to plot.