hlaCallsToCounts: Transform HLA calls to counts table

In Genentech/MiDAS: R package for immunogenomics data handling and association analysis

Transform HLA calls to counts table

Description

hlaCallsToCounts converts HLA calls data frame into a counts table.

Usage

hlaCallsToCounts(hla_calls, check_hla_format = TRUE)

Arguments

hla_calls	HLA calls data frame, as returned by readHlaCalls function.
check_hla_format	Logical indicating if hla_calls format should be checked. This is useful if one wants to use hlaCallsToCounts with input not adhering to HLA nomenclature standards. See examples.

Value

HLA allele counts data frame. First column holds samples ID's, further columns, corresponding to specific alleles, give information on the number of their occurrences in each sample.

Genentech/MiDAS documentation built on Feb. 5, 2024, 11:52 a.m.