demultiplexing: Generating running bcl2fastq

In kendomaniac/CASC: rCASC reproducible Classification Analysis of Single Cell Sequencing Data

Generating running bcl2fastq

Description

This function executes the Illumina bcl2fastq program

Usage

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

## Not run: 
    #running rsemstar index for human
    demultiplexing(group="docker",
    data.folder="/home/calogero/Documents/data/lollini/3a_run/170712_NB501050_0097_AH3FGNBGX3",
    threads=24)


## End(Not run)

kendomaniac/CASC documentation built on Oct. 4, 2023, 11:10 a.m.