MUGAmaps: Array annotation information for the mouse MUGA arrays in...

In mmconvert: Mouse Map Converter

Array annotation information for the mouse MUGA arrays in mouse genome build 39.

Description

A list of four data frames with annotation information for the four MUGA arrays, GigaMUGA ("gm"), MegaMUGA ("mm"), MiniMUGA ("mini") and the original MUGA ("muga"). Each has columns marker, chromosome, build 39 basepair position, and sex-averaged cM position (in Cox Map v3).

Details

SNP probes for the MUGA arrays were blasted against mouse genome build GRCm39 and locations interpolated using revised Cox maps. See https://github.com/kbroman/MUGAarrays for the array annotations and https://github.com/kbroman/CoxMapV3 for the genetic maps. Note that for the genetic map locations, markers were shifted so that 0 cM corresponds to 3 Mbp, using the chromosome- and sex-specific recombination rate. Moreover, the Cox map positions were smoothed slightly to avoid regions with 0 recombination.

Source

https://github.com/kbroman/MUGAarrays

Examples

data(MUGAmaps)

mmconvert documentation built on April 25, 2023, 5:13 p.m.