generic.trans.probs: Generic transition probabilities

In DOQTL: Genotyping and QTL Mapping in DO Mice

Description

Generic function to provide starting transition probabilities. Not ready for use in this version.

Usage

  generic.trans.probs(states, snps, chr = c(1:19, "X"), sex = c("M", "F"))

Arguments

states	Character vector containing the genotype states coded as letters.
snps	Data.frame containing the marker locations. SNP ID, chromosome, Mb anc cM locations in columns 1 through 4, respectively.
chr	Character containing the chromosome to use.
sex	Character that is either FALSE or M indicating the sex. Only used on x chromosome.

Details

This function is a placeholder for a more sophisticated algorithm to be developed later. It is an effort to provide a set of starting transition probabilities for mapping populations other than the DO.

Value

A matrix of transition probabilities between genotype states.

Note

This function is still in development.

Author(s)

Daniel Gatti

See Also

do.trans.probs, cc.trans.probs

Examples

  ## Not run:  generic.trans.probs(states, snps, chr = 1, sex = "M") 

DOQTL documentation built on May 6, 2019, 3:09 a.m.