selMarkers_qall: Sample markers at several qall levels

In fitPoly: Genotype Calling for Bi-Allelic Marker Assays

Sample markers at several qall levels

Description

In order to get an idea of the quality of markers with different levels of qall, this function samples marker numbers at a specified set of qall values.

Usage

selMarkers_qall(chk, qall_levels, mrkperlevel=1,
qall_flavor="qall_mult")

Arguments

chk	a data frame as returned by checkF1
qall_levels	a numeric vector with the levels of the quality parameter (qall_mult or qall_weights, see parameter qall_flavo) at which markers should be selected
mrkperlevel	the number of markers to select per level of qall
qall_flavor	which qall to use: by default qall_mult, also qall_weights is possible

Value

A subset of data frame chk with selected rows, in ascending order of the qall_flavor column. The first <mrkperlevel> markers with qall >= each qall.level are returned; duplicated selections are removed (so the number of returned markers may be less than length(qall_levels) * mrkperlevel)

fitPoly documentation built on April 3, 2025, 8:58 p.m.