cutadapt.Rd
This function executes the docker container by running CutAdapt algorithm a the input RNA-Seq dataset to remove the sequencing adapters.
cutadapt( group = c("sudo", "docker"), scratch.folder, data.folder, adapter.type = c("ILLUMINA", "NEB"), threads = 1 )
group, | a character string. Two options: |
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scratch.folder, | a character string indicating the scratch folder where docker container will be mounted |
data.folder, | a character string indicating where fastq files are located |
adapter.type, | a character string. Two options: |
threads, | a number indicating the number of cores to be used from the application |
The fastq files of the trimmed sequencing reads
if (FALSE) { ... }