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Update the backing matrix

Source: R/gt_update_backingfile.R
gt_update_backingfile.Rd

This functions forces a re-write of the file backing matrix to match the gen_tibble. Individuals and loci are subsetted and reordered according to the current state of the gen_tibble. Tests for this function are in test_gt_order_loci.R

Usage

gt_update_backingfile(
  .x,
  backingfile = NULL,
  chunk_size = NULL,
  rm_unsorted_dist = TRUE,
  quiet = FALSE
)

Arguments

.x

a gen_tibble object

backingfile

the path, including the file name without extension, for backing files used to store the data (they will be given a .bk and .RDS automatically). If left to NULL (the default), the file name will be based on the name f the current backing file.

chunk_size

the number of loci to process at once

rm_unsorted_dist

boolean to set genetic_dist to zero (i.e. remove it) if it is unsorted within the chromosomes.

quiet

boolean to suppress information about the files

Value

a gen_tibble with a backing file (i.e. a new File Backed Matrix)

Details

This function does not check whether the positions of your genetic loci are sorted. To check this, and update the file backing matrix, use gt_order_loci().