mixcr — mixcr • rCASC

This function creates mixcrFiles from bulk TCRseq

mixcr(
  group = c("sudo", "docker"),
  scratch.folder,
  fastqPath,
  resFolderCustom = "NULL"
)

Arguments

group,: a character string. Two options: sudo or docker, depending to which group the user belongs
scratch.folder,: a character string indicating the path of the scratch folder
fastqPath,: Path of fastq folder
resFolderCustom,: optional parameter. Default will store the results in fastqPath otherwise will store the results in resFolderCustom path.

Value

a formatted mixcr file

Author

Luca Alessandrì

Examples

if (FALSE) {
library(rCASC)
dir.create("scratch")
scratch.folder=paste(getwd(),"scratch",sep="/")
fastqPath=paste(getwd(),"fastq",sep="/")
resFolder=paste(getwd(),"resFolder",sep="/")
dir.create(resFolder)
mixcr(group="docker",scratch.folder=scratch.folder,fastqPath=fastqPath,resFolderCustom=resFolder)
}