threept: Three-point probabilities for four-way RILs by sibling mating

threeptR Documentation

Three-point probabilities for four-way RILs by sibling mating

Description

Three-point haplotype probabilities for four-way recombinant inbred lines formed by sibling mating. A and X indicate autosome and the X chromosome. I and NI indicate strong crossover interference (gamma model with \nu=11.3) and no interference.

Usage

data(threept.AI)
data(threept.ANI)
data(threept.XI)
data(threept.XNI)

Format

Each is matrix; the first two columns indicate the recombination fraction between markers (at meiosis) and the three-point coincidence (at meiosis). The remaining columns are the haplotype probabilities for the fixed RIL chromosome. These are for the reduced set of states, taking account of many symmetries.

Use count.absorb to get the numbers of full states in each reduced state.

Source

These were calculated using perl programs included with this package.

References

Haldane, J. B. S. and Waddington, C. H. (1931) Inbreeding and linkage. Genetics 16, 357–374.

Broman, K. W. (2005) The genomes of recombinant inbred lines. Genetics 169, 1133–1146.

See Also

get.ril.prob

Examples

  data(threept.AI)
  plot(threept.AI[,c(1,3)])

kbroman/ricalc documentation built on May 17, 2023, 11:54 p.m.