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xoi (version 0.74)

Tools for Analyzing Crossover Interference

Description

Analysis of crossover interference in experimental crosses, particularly regarding the gamma model. See, for example, Broman and Weber (2000) .

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Install

install.packages('xoi')

Monthly Downloads

151

Version

0.74

License

GPL-3

Issues

0

Pull Requests

0

Stars

4

Forks

3

Maintainer

Karl Broman

Last Published

December 8th, 2025

Functions in xoi (0.74)

coincidence

Estimate coincidence function
stahlLoglik

Calculate log likelihood for Stahl model
recrate2scanone

Convert recrate to scanone format
xoiversion

Installed version of R/xoi
gammacoi

Coincidence function for the gamma model
intensity

Estimate intensity function
stahlcoi

Coincidence function for the Stahl model
xoprob

Distribution of number of crossovers
simStahl

Simulate crossover locations under the Stahl model
bssbsb

BSS/BSB backcross data
convertxoloc

Convert format of crossover locations data
countxo

Estimate number of crossovers
chiasma

Estimate chiasma distribution from crossover counts
est.recrate

Estimate recombination rate
est.coi

Estimate the coincidence function
distance.given.two

Distance between crossovers given there are two
find.breaks

Estimate crossover locations
ioden

Distance between crossovers
fitGamma

Fit Gamma model
est.coi.um

Estimate the coincidence as a function of micron distance
joint.given.two

Crossover locations given there are two
kfunc

estimate Ripley's K function
fitStahl

Fit Stahl model
location.given.one

Location of crossover given there is one
first.given.two

Location of first crossover given there are two
firstden

Distance to a crossover