add aliases for ddSeq (4b724227) · Commits · github_fork / Universc

launch_universc.sh

+2 −2

Original line number	Diff line number	Diff line
		@@ -84,7 +84,7 @@ Mandatory arguments to long options are mandatory for short options too.
		Sci-Seq (8bp UMI, 10bp barcode): sciseq
		Smart-seq2-UMI, Smart-seq3 (11bp barcode, 8bp UMI): smartseq
		SCRUB-Seq (6bp barcode, 10bp UMI): scrubseq
		SureCell (18bp barcode, 8bp UMI): surecell, biorad
		SureCell (18bp barcode, 8bp UMI): surecell, ddseq, biorad
		Custom inputs are also supported by giving the name "custom" and length of barcode and UMI separated by "_"
		e.g. Custom (16bp barcode, 10bp UMI): custom_16_10
		-b, --barcodefile FILE Custom barcode list in plain text (with each line containing a barcode)
		@@ -505,7 +505,7 @@ if [[ "$technology" == "smartseq" ]] \|\| [[ "$technology" == "smart-seq" ]] \|\| [[
		echo "*WARNING: Smart-Seq settings should only be used for kits that have UMIs*"
		technology="smartseq"
		fi
		if [[ "$technology" == "surecell" ]] \|\| [[ "$technology" == "surecellseq" ]] \|\| [[ "$technology" == "surecell-seq" ]]\|\| [[ "$technology" == "bioraad" ]]; then
		if [[ "$technology" == "surecell" ]] \|\| [[ "$technology" == "surecellseq" ]] \|\| [[ "$technology" == "surecell-seq" ]] \|\| [[ "$technology" == "ddseq" ]] \|\| [[ "$technology" == "dd-seq" ]] \|\| [[ "$technology" == "bioraad" ]]; then
		echo "Running with SureCell parameters"
		technology="surecell"
		fi