+"\t "+COMMAND_MULTIPLEX+" \t\t demultiplex fastq file(s), with optional handling of molecular barcodes for further use in 'dupes' module\n"
+"\t "+COMMAND_MULTIPLEX_ILLUMINA+" \t demultiplex fastq file(s) using Illumina Index files, with optional handling of molecular barcodes for further use in 'dupes' module\n"
+"\t "+COMMAND_DUPES+" \t\t removes read duplicates based on molecular barcodes found in read name headers (as produced by clip or plex)\n"
+"\t "+COMMAND_DROPSEQ+" \t\t clips cell barcode and UMI from read 1 and adds them to header of read 2. This command is for processing drop-seq results.\n"
//+"\t "+COMMAND_DROPSEQ+" \t\t clips cell barcode and UMI from read 1 and adds them to header of read 2. This command is for processing drop-seq results.\n"