Skip to content

v2.0.0-beta.2
Compare
Choose a tag to compare
@nebfield nebfield released this 31 Jul 11:59
· 32 commits to main since this release
v2.0.0-beta.2
69c467e
This commit was created on GitHub.com and signed with GitHub’s verified signature.
GPG key ID: B5690EEEBB952194
Learn about vigilant mode.

Changelog

Features

  • Add FID support internally (FID + IID must be unique for all samples) [@nebfield, thanks to @jasamack for initial draft fix]
  • Add parameters to tune target variant missingness (--pca_geno_miss_target, default maximum 10%) and/or MAF (--pca_maf_target, default no filtering) during intersection with the reference panel. [@smlmbrt]
    • The new defaults will help incorrect ancestry assignments when running the calculator on low sample sizes (revert to pre-beta version behaviour), as this behaviour was caused by the MAF filter before.
  • Add --efo_id parameter, deprecating --trait_efo which will be removed in a future release

Misc

  • Remove default anaconda channels because of license changes #342

Contributors

smlmbrt, nebfield, and jasamack
Assets 2
Loading