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Summarise genomic data

Source: R/summarise_genomic_data.R
summarise_genomic_data.Rd

Calculate summary statistics from tidy genomic data or a GDS file. Statistics are calculated by population and marker and include REF and ALT allele frequencies, observed and expected heterozygosity, and the inbreeding coefficient (FIS).

Usage

summarise_genomic_data(data, path.folder = NULL, digits = 4, verbose = TRUE)

Arguments

data

Tidy genomic data or a Genomic Data Structure (GDS) file or object:

  • tidy data

  • Genomic Data Structure (GDS)

How to get GDS and tidy data ? Use read_genome to import supported formats and tidy_genome when a tidy table is needed.

path.folder

(path, optional) By default will print results in the working directory. Default: path.folder = NULL.

digits

(integer, optional). Default: digits = 4.

verbose

Logical indicating whether progress messages are emitted. Default: verbose = TRUE.