Linkage Map Construction using the MSTmap Algorithm

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Documentation for package ‘ASMap’ version 1.0-7

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

ASMap-package	Additional functions for linkage map construction and manipulation of R/qtl objects.
alignCross	Graphical linkage group identity and alignment.
breakCross	Break linkage groups of an 'qtl' cross object
combineMap	Combine linkage maps from multiple 'qtl' cross objects
fixClones	Consensus genotypes for clonal genotype groups
genClones	Find and report genotype clones
heatMap	Heat map of the estimated pairwise recombination fractions and LOD linkage between markers.
mapBC	A constructed linkage map for a backcross barley population
mapBCu	An unconstructed marker set for a backcross barley population
mapDH	A constructed linkage map for a doubled haploid wheat population
mapDHf	An unconstructed marker set for a doubled haploid wheat population
mapF2	Simulated constructed linkage map for a self pollinated F2 barley population
mergeCross	Merge linkage groups of an 'qtl' cross object
mstmap	Extremely fast linkage map construction for 'qtl' objects using MSTmap.
mstmap.cross	Extremely fast linkage map construction for 'qtl' objects using MSTmap.
mstmap.data.frame	Extremely fast linkage map construction for data frame objects using MSTmap.
pp.init	Parameter initialization function
profileGen	Profile individual genotype statistics for an R/qtl cross object
profileMark	Profile individual marker and interval statistics for an R/qtl cross object
pullCross	Pull markers from a linkage map.
pushCross	Push markers into an established R/qtl linkage map.
pValue	P-value graph
quickEst	Very quick estimation of genetic map distances.
statGen	Individual genotype statistics for an R/qtl cross object
statMark	Individual marker and interval statistics for an R/qtl cross object
subsetCross	Subset an R/qtl object