Estimate naive allele prevalence

Author

Kathryn Murie

Tool Information

This tool provides a naive implementation of estimating allele prevalence from amino acid calls. Prevalence is estimated by calculating the proportion of samples (with at least one call) that have a given variant at a given position.

Script Usage

Rscript estimate_allele_prevalence_naive.R \
  --aa_calls data/example_amino_acid_calls.tsv \
  --output prevalence.tsv
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