filter_individuals: Filter out individuals

In mappoly: Genetic Linkage Maps in Autopolyploids

Filter out individuals

Description

This function removes individuals from the data set. Individuals can be user-defined or can be accessed via interactive kinship analysis.

Usage

filter_individuals(
  input.data,
  ind.to.remove = NULL,
  inter = TRUE,
  type = c("Gmat", "PCA"),
  verbose = TRUE
)

Arguments

input.data	name of input object (class mappoly.data)
ind.to.remove	individuals to be removed. If NULL it opens an interactive graphic to proceed with the individual selection
inter	if TRUE, expects user-input to proceed with filtering
type	A character string specifying the procedure to be used for detecting outlier offspring. Options include "Gmat", which utilizes the genomic kinship matrix, and "PCA", which employs principal component analysis on the dosage matrix. coefficient (or covariance) is to be computed. One of "pearson" (default), "kendall", or "spearman": can be abbreviated.
verbose	if TRUE (default), shows the filtered out individuals

Author(s)

Marcelo Mollinari, [e-mail]

mappoly documentation built on May 29, 2024, 6:05 a.m.