This function executes the Illumina bcl2fastq program

demultiplexing(group = c("sudo", "docker"), data.folder, threads = 8)

Arguments

group,

a character string. Two options: "sudo" or "docker", depending to which group the user belongs

data.folder,

a character string indicating the Illumina folder where the Samplesheet.csv is located, and example of Samplesheet.cvs is in inst/examples folder

threads,

a number indicating the number of cores to be used from the application

Value

Fastq files

Examples

if (FALSE) { #running rsemstar index for human demultiplexing(group="docker", data.folder="/home/calogero/Documents/data/lollini/3a_run/170712_NB501050_0097_AH3FGNBGX3", threads=24) }