indiv_missingness: Estimate individual missingness

In tidypopgen: Tidy Population Genetics

Estimate individual missingness

Description

Estimate missingness for each individual (i.e. the frequency of missing genotypes in an individual).

Usage

indiv_missingness(.x, as_counts, block_size, ...)

## S3 method for class 'tbl_df'
indiv_missingness(
  .x,
  as_counts = FALSE,
  block_size = bigstatsr::block_size(nrow(.x), 1),
  ...
)

## S3 method for class 'vctrs_bigSNP'
indiv_missingness(
  .x,
  as_counts = FALSE,
  block_size = bigstatsr::block_size(length(.x), 1),
  ...
)

Arguments

.x	a vector of class vctrs_bigSNP (usually the genotype column of a gen_tibble object), or a gen_tibble.
as_counts	boolean defining whether the count of NAs (rather than the rate) should be returned. It defaults to FALSE (i.e. rates are returned by default).
block_size	maximum number of loci read at once.
...	currently unused.

Value

a vector of heterozygosities, one per individuals in the gen_tibble

Examples

example_gt <- load_example_gt("gen_tbl")

example_gt %>% indiv_missingness()

# For missingness as counts:
example_gt %>% indiv_missingness(as_counts = TRUE)

tidypopgen documentation built on Aug. 28, 2025, 1:08 a.m.