gl.filter.monomorphs

-- name of the input genlight object [required]

-- switch to output progress bar [default is false]

probar

This script deletes monomorphic loci from a genlight {adegenet} object

Functions are provided that facilitate the import and analysis of
snp and silicodart (presence/absence) data. The main focus is on data generated
by DarT (Diversity Arrays Technology). However, once SNP or related fragment
presence/absence data from any source is imported into a genlight object many
of the functions can be used. Functions are available for input and output of
snp and silicodart data, for reporting on and filtering on various criteria
(e.g. CallRate, Heterozygosity, Reproducibility, maximum allele frequency).
Advanced filtering is based on Linkage Disequilibrium and HWE. Other functions
are available for visualization after PCoA, or to facilitate transfer of data
between genlight/genind objects and newhybrids, related, phylip packages etc.

Bernd Gruber

dartR

gl.filter.monomorphs: Remove monomorphic loci, including those with all NAs

Description

Usage

Arguments

Value

Details

Examples