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IBDhaploRtools (version 1.8)

Functions for the Analysis of IBD Haplo Output

Description

Functions to analyze, plot, and store the output of running IBD_Haplo software package. More information regarding IBD_Haplo can be found at http://www.stat.washington.edu/thompson/Genepi/pangaea.shtml.

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Version

Install

install.packages('IBDhaploRtools')

Monthly Downloads

50

Version

1.8

License

GPL-3

Maintainer

Fiona Grimson

Last Published

February 17th, 2015

Functions in IBDhaploRtools (1.8)

ibdhap.barplot

create ibd barplot
h.to.g

Convert haplotype states to genotype states
ibdhap.compare.loci

ibdhap compare.loci
ibdhap.names

Get chromosome names
ibdhap.make.true

ibdhap make true states
ibdhap.compare.segs

ibdhap compare segments
ibdhap.make.calls

ibdhap.make.calls
ibdhap.reduce.states

ibdhap reduce states
get.counts

get counts
cumul.sum

cumulative.sums
sumcol

sum over specific columns
ibdhap.summary.calls

ibdhap summary of called states
removezeros

remove zeros
meet.cutoff

meet cutoff
ibdhap.transitions

create transition matrix
return.ibd.val

return ibd value
make.col.vec

make color vector
ibdhap.seg.lengths

ibdhap.seg.lengths
ids_phased

Example MORGAN IBDhaplo output
IBDhaploRtools-package

Functions for the Analysis of IBD Haplo output