Comments (1)
At the moment, and for legacy reasons, I still advise to use the genetic map from Eagle2, which might be a little difference from the one used by SHAPEIT4 and SHAPEIT5. There is no good reason for this and you should feel free to use what you prefer. As long as you format it correctly, you can use the genetic map of your choice. I did not provide any input in the generation of the genetic maps
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Related Issues (20)
- 1.15? HOT 2
- Issues with the number of heterozygous sites
- Crash before/during call-gtc_tsv, difficult to interpret the error message... HOT 1
- question with call cnv for array data HOT 8
- question about calling CNV with tumor and normal-pair sample HOT 3
- query about calling CNV with multi-samples HOT 1
- Conceptual Confusion about CNV and mCA HOT 2
- check bpm or not HOT 2
- Could not parse gender (0/1/2) in the sample statistics file HOT 2
- Questions about how to filter callset HOT 2
- Written 0 variants for all contigs HOT 1
- GC content in VCF file HOT 2
- The sequence "hs37d5" not found and "No BGZF EOF marker" errors HOT 1
- Any suggestions on filters for downstream analysis? HOT 2
- Imputation Error - terminate called after throwing an instance of std::length_error HOT 1
- no mLOY result but normal mLOX and mCA of male in autosomes HOT 6
- mochatools input format HOT 3
- Unable to infer the A and B alleles while parsing the site... HOT 11
- Incomplete LOH call(s) on Chr12p HOT 10
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