Related Issues (20)
- Z score for Fst
- plot_pairwise_average_fst may change the order of the cohorts when using a cohort dict HOT 1
- Pairwise Fst plots - Only plotting one information on each plot HOT 1
- Should Fst be clipped between 0 and 1?
- Anopheles pca() should use default site mask
- Make the released sequence QC summary stats available HOT 2
- explanation of site_annotations output HOT 1
- Handle missing discordant read calls for Af1.x HOT 3
- Upgrade latest_docs.yml to use Node.js 20
- Consider adding more documentation for sample set metadata
- codecov/project CI check fails but seems to require additional coverage on code unrelated to the PR
- Diplotype clustering fails on sample sets without CNV calls HOT 5
- Diplotype clustering title reports the number of amino acid snps, not total snps used in clustering
- Add option to filter samples by max heterozygosity in advanced diplotype clustering HOT 4
- Advanced diplotype clustering orders genes in the CNV section by label rather than by genomic position HOT 6
- Display normal copy number (2) differently from missing CNV call (NaN) in advanced diplotype clustering HOT 3
- Study URL in sample_metadata() is hard-coded rather than sourced from manifest.tsv HOT 1
- SNP browser to replace Panoptes HOT 2
- Add Ag3.cross_metadata() to API docs
- FST plotting function error HOT 5
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