Open natwine opened 5 years ago
Made the following modifications:
min_seg_len
(default = 3.0 [cM]) which is being used for germline and IBD0 estimation. It can be set either in config.yaml
or from command line with --config min_seg_len=2.0
etc.XXX_IBD-segments.match.gz
with the segment that were used for IBD0/degree estimation (in germline match file format)
please could you add genetic length in cM to the final post-masked .match files. Ideally these will be all the segments that have been used in the relationship estimation step.
We agreed to adjust GERMLINE analysis step to identify segments 3cM or larger. Segment length will be set as a parameter for the user to specify, with the default value being 3cM.