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@kbroman kbroman released this 29 Mar 18:10
0.8
3cf89b8
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Learn about vigilant mode.

  • Released on CRAN.

  • Added dataset grcm39_chrlen with lengths of GRCm39 chromosomes in basepairs.

  • Revised mmconvert to give warnings if inferred positions are outside of the range of chromosomes in GRCm39. (Issue #7)

  • In cross2_to_grcm39() when using "guess", only pick the GM/MM combination if it gives >20 additional markers than either GM or MM on their own.

  • Replaced the coxmap object with a smoothed version (using the R/qtl2 function smooth_gmap() with alpha=0.02), with intervals with 0 recombination smoothed out to allow some recombination. The mmconvert() function uses this version of the Cox maps, and so gives interpolated positions that are similarly smoothed. Included a script smooth_coxmaps.R that does the work.

  • Revised the MUGA array datasets to use this "smoothed" version of the Cox maps.

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