writeTargetingDistance: Write targeting model distances to a file

In shazam: Immunoglobulin Somatic Hypermutation Analysis

Write targeting model distances to a file

Description

writeTargetingDistance writes a 5-mer targeting distance matrix to a tab-delimited file.

Usage

writeTargetingDistance(model, file)

Arguments

model	TargetingModel object with mutation likelihood information.
file	name of file to write.

Details

The targeting distance write as a tab-delimited 5x3125 matrix. Rows define the mutated nucleotide at the center of each 5-mer, one of c("A", "C", "G", "T", "N"), and columns define the complete 5-mer of the unmutated nucleotide sequence. NA values in the distance matrix are replaced with distance 0.

See Also

Takes as input a TargetingModel object and calculates distances using calcTargetingDistance.

Examples

## Not run: 
# Write HS5F targeting model to working directory as hs5f.tab
writeTargetingDistance(HH_S5F, "hh_s5f.tsv") 

## End(Not run)

shazam documentation built on Oct. 3, 2023, 1:06 a.m.