varcall2HowMany: From excel to How Many varian callers

In itamuria/immunoeasy: Make Immuno Therapies An Easier Process

From excel to How Many varian callers

Description

From an excel with mutation detected in each varian caller, the function convert the data in a table with information about in how many variant callers appeared the mutation.

Usage

varcall2HowMany(
  filename,
  chr_pos = 1,
  position = 2,
  gen_name = 3,
  varian_caller = 4,
  VAF = NA,
  others = NULL,
  var_cal_4 = c("mutect38", "somaticsniper", "strelka", "varscan")
)

Arguments

filename	The name of the excel file with the mutations with choromosome, position, gen name and variant caller
chr_pos	Position of the chromosome name in the data frame
position	Position of the mega position in the data frame
gen_name	Position of the Gene name in the data frame
varian_caller	Position of the Variant Caller in the data frame
VAF	Position of the VAF name in the data frame (if is not present, NA will be presented)
others	Position of the other variables in the data frame that will be merged
var_cal_4	Names of the four variant caller to calculate the How many field

Value

data frame with How many variant callers per mutation

Examples

## Not run: 
varcall2HowMany (filename)

## End(Not run)

itamuria/immunoeasy documentation built on Sept. 30, 2022, 5:53 a.m.