EXmuts: Example Mutations dataset

Description Usage Format Details See Also

Description

This data set catalogs the 500 single-nucleotide variants contained in the EXhaps dataset. This dataset is intended to accompany the EXhaps dataset; each row of EXmuts describes a column (i.e. SNV) in EXhaps.

Usage

1

Format

A data set with 500 rows and 6 variables:

colID

Numeric. The corresponding column number of the SVN in the EXhaps dataset.

chrom

Numeric. The chromosome number.

position

Numeric. The location of the SNV on the chromosome, in base pairs.

afreq

Numeric. The derived allele frequency of the SNV.

marker

Character. The names of the genes contained in the combined exon.

pathwaySNV

Logical. Indicates if the SNV is located within the pathway.

Details

Together, the EXmuts and EXhaps datasets represent example output of the SNVdata object returned by the read_slim function. The EXhaps data set represents the sparse matrix Haplotypes returned by read_slim, and the EXmuts data set represents the Mutations data frame returned by read_slim. This toy data set, used primarily for demonstration, contains 50 SNVs which were randomly sampled from genes in the apoptosis sub-pathway, and 450 SNVs sampled from outside the pathway.

See Also

EXhaps, read_slim


SimRVSequences documentation built on July 1, 2020, 6:03 p.m.