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xoi (version 0.72)

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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Version

Install

install.packages('xoi')

Monthly Downloads

183

Version

0.72

License

GPL-3

Issues

0

Pull Requests

0

Stars

4

Forks

3

Maintainer

Karl Broman

Last Published

March 22nd, 2023

Functions in xoi (0.72)

fitStahl

Fit Stahl model
fitGamma

Fit Gamma model
xoiversion

Installed version of R/xoi
xoprob

Distribution of number of crossovers
intensity

Estimate intensity function
location.given.one

Location of crossover given there is one
firstden

Distance to a crossover
stahlLoglik

Calculate log likelihood for Stahl model
ioden

Distance between crossovers
stahlcoi

Coincidence function for the Stahl model
joint.given.two

Crossover locations given there are two
gammacoi

Coincidence function for the gamma model
recrate2scanone

Convert recrate to scanone format
simStahl

Simulate crossover locations under the Stahl model
est.coi.um

Estimate the coincidence as a function of micron distance
est.coi

Estimate the coincidence function
coincidence

Estimate coincidence function
kfunc

estimate Ripley's K function
convertxoloc

Convert format of crossover locations data
est.recrate

Estimate recombination rate
first.given.two

Location of first crossover given there are two
bssbsb

BSS/BSB backcross data
chiasma

Estimate chiasma distribution from crossover counts
find.breaks

Estimate crossover locations
distance.given.two

Distance between crossovers given there are two
countxo

Estimate number of crossovers