freqsBlind: freqsBlind: Allele Frequencies for SNPs and STRs

In thoree/stat340: Data and functions for BIAS at NMBU

freqsBlind: Allele Frequencies for SNPs and STRs

Description

This data set contains allele frequencies for 198 markers.

Usage

freqsBlind

Format

A list of length 198 where each element in the list is a vector.

Each element in the list is a vector of allele frequencies for a single marker:

The first 27 markers are STRs (Short tandem repeats, also called microsatellites)

• The name of each vector refers to the name of the STR locus (for D1S1656: D = DNA, 1 = chromosome 1, S = STR, 1656 = unique identifier).

• The element names of these vectors give the number of nucleotides that are repeated directly next to each other.

• Each vector consists of the frequencies for each of the repeats and the sum of each vector is 1 (approximately 1 in some cases).

The remaining markers are SNPs (Single Nucleotide Polymorphisms)

• The name of each vector refers to the SNP ID (not related to the position).

• The element names of these vectors are one or two of the nucleotide bases (A, T, G, C).

• The frequencies of the bases is given for each marker and the sum of each vector is 1.

Examples

# First element of the first vector in the list
freqsBlind[[1]][1]

# The same output as above
freqsBlind$D1S1656[1]

thoree/stat340 documentation built on June 30, 2024, 4:04 p.m.