frequencies: Data on allele frequencies of the example GTseq panel.

In artaylor85/paneljudge: Judge the performance of a panel of genetic markers using simulated data

Data on allele frequencies of the example GTseq panel.

Description

A data set of allele frequencies for four countries: Colombia, French Guiana, Mali and Sengal.

Usage

frequencies

Format

Each entry of the list is a matrix, fs say, with m=126 rows and Kmax=44 variables, where m is the marker count and Kmax is the maximum cardinality (per-marker allele count) observed over all m markers. If, for any t = 1,...,m, the maximum cardinality exceeds that of the t-th marker (i.e. if Kmax > Kt), then all fs[t,1:Kt] are in (0,1] and all fs[t,(Kt+1):Kmax] are zero. For example, for PF3D7_0103600 in Colombia, Kt = 2 and frequencies$Colombia["PF3D7_0103600",] = (0.687075, 0.312925, 0, ..., 0).

Allele.1

Frequency (numeric) of the first allele

...

Allele.44

Frequency (numeric) of the Kmax allele

Source

see https://github.com/artaylor85/paneljudge/blob/master/data_raw/Process_GTseq.R

artaylor85/paneljudge documentation built on March 6, 2023, 1:50 a.m.