Version 1.12:
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* Functions for interval mapping have been consolidated (mpIMmm, mpIMlm) with
argument to determine whether mixed models are used or not (mpIM)
* Plot of QTL mapping results shows support intervals for all QTL (plot.mpqtl)
function to compute support intervals for QTL (supportinterval)
- useful for determining precision of QTL positioning
* Function to compute map positions given a map order (based on recombination
fractions between adjacent markers) (computemap)
* Function to reorder all components of an mpcross object given a map order (maporder)
* Function to fill in missing values based on multipoint haplotype probabilities(fillmiss)
* Functions to fill in missing recombination fractions based on nearby markers (fill/fill2)
* mapcomp structure to compare orders across two maps. Summary provides
information on how many markers are in each map and in common as well
as correlations between maps. Plot displays marker positions from each
map against each other for all chromosomes with > 1 marker in common.
Points along the diagonal indicate exact agreement between maps.
* Altered mp.sim to generate 0/1 genotypes for founders either in accordance
with recombination fractions or with founders in linkage equilibrium
* mp.sim has been renamed to sim.mpcross
* Function to pull out markers surrounding qtl (qtlmap) and plot linkage map (plotlink.map) with QTL highlighted