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OpenMendel / SnpArrays.jl

Compressed storage for SNP data
https://openmendel.github.io/SnpArrays.jl/latest
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Admixture-King #76

Closed Hua-Zhou closed 4 years ago

Hua-Zhou commented 4 years ago

Implement grm_admixture() function, which calculates the kinship in presence of admixture using the ADMIXTURE ancestry estimates. This is same as the REAP method http://faculty.washington.edu/tathornt/software/REAP but much faster.

codecov-commenter commented 4 years ago

Codecov Report

Merging #76 into master will increase coverage by 0.24%. The diff coverage is 91.89%.

Impacted file tree graph

@@            Coverage Diff             @@
##           master      #76      +/-   ##
==========================================
+ Coverage   83.54%   83.79%   +0.24%     
==========================================
  Files          13       14       +1     
  Lines        1161     1197      +36     
==========================================
+ Hits          970     1003      +33     
- Misses        191      194       +3
Impacted Files Coverage Δ
src/SnpArrays.jl 100.00% <ø> (ø)
src/vcf2plink.jl 95.08% <ø> (ø)
src/admixture.jl 91.66% <91.66%> (ø)
src/snparray.jl 96.96% <100.00%> (ø)

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coveralls commented 4 years ago

Coverage Status

Coverage increased (+0.3%) to 86.051% when pulling 99cecd39dbc56b03d07faf791018ee422c4e5e5f on admixture_king into 443826dc496bd01b6f34bf3369d010a6e061ef4e on master.