readKirCalls {midasHLA} | R Documentation

## Read KIR calls

### Description

`readKirCalls` read KIR calls from file.

### Usage

    readKirCalls(file, na.strings = c("", "NA", "uninterpretable"))

### Arguments

`file` | Path to input file.
`na.strings` | a character vector of strings which are to be interpreted as `NA` values. Blank fields are also considered to be missing values in logical, integer, numeric and complex fields. Note that the test happens after white space is stripped from the input, so `na.strings` values may need their own white space stripped in advance.

### Details

Input file has to be a tsv formatted table. First column should be named "ID" and contain samples IDs, further columns should hold KIR genes presence / absence indicators. See `system.file("extdata", "MiDAS_tut_KIR", package = "midasHLA")` for an example.

### Value

Data frame containing KIR gene's counts. First column hold samples IDs, further columns hold KIR genes presence / absence indicators.

### Examples

    file <- system.file("extdata", "MiDAS_tut_KIR.txt", package = "midasHLA")
    readKirCalls(file)

[Package midasHLA version 1.2.0 Index]