alias for 1cellbio (8a193441) · Commits · github_fork / Universc

launch_universc.sh

+6 −6

Original line number	Diff line number	Diff line
		@@ -75,9 +75,9 @@ Mandatory arguments to long options are mandatory for short options too.
		CEL-Seq (6bp barcode, 6bp UMI): celseq
		Drop-Seq (12pb barcode, 8pm UMI): nadia, dropseq
		iCell8 version 3 (11bp barcode, 14bp UMI): icell8 or custom
		inDrops version 1 (19bp barcode, 8bp UMI): indrops-v1
		inDrops version 2 (19bp barcode, 8bp UMI): indrops-v2
		inDrops version 3 (8bp barcodes, 6bp UMI): indrops-v3
		inDrops version 1 (19bp barcode, 8bp UMI): indrops-v1, 1cellbio-v1
		inDrops version 2 (19bp barcode, 8bp UMI): indrops-v2, 1cellbio-v2
		inDrops version 3 (8bp barcodes, 6bp UMI): indrops-v3, 1cellbio-v3
		Quartz-Seq2 (14bp barcode, 8bp UMI): quartzseq2-384
		Quartz-Seq2 (15bp barcode, 8bp UMI): quartzseq2-1536
		Sci-Seq (8bp UMI, 10bp barcode): sciseq
		@@ -461,15 +461,15 @@ if [[ "$technology" == "icell8" ]] \|\| [[ "$technology" == "icell-8" ]]; then
		echo "*WARNING: iCELL8 settings should only be used for kits that have UMIs*"
		technology="icell8"
		fi
		if [[ "$technology" == "indrop-v1" ]] \|\| [[ "$technology" == "indrops-v1" ]] \|\| [[ "$technology" == "indropv1" ]] \|\| [[ "$technology" == "indropsv1" ]]; then
		if [[ "$technology" == "indrop-v1" ]] \|\| [[ "$technology" == "indrops-v1" ]] \|\| [[ "$technology" == "indropv1" ]] \|\| [[ "$technology" == "indropsv1" ]] \|\| [[ "$technology" == "1cellbio-v1" ]] \|\| [[ "$technology" == "1cellbiov1" ]]; then
		echo "Running with inDrop parameters (version 1)"
		technology="indrop-v1"
		fi
		if [[ "$technology" == "indrop-v2" ]] \|\| [[ "$technology" == "indrops-v2" ]] \|\| [[ "$technology" == "indropv2" ]] \|\| [[ "$technology" == "indropsv2" ]]; then
		if [[ "$technology" == "indrop-v2" ]] \|\| [[ "$technology" == "indrops-v2" ]] \|\| [[ "$technology" == "indropv2" ]] \|\| [[ "$technology" == "indropsv2" ]] \|\| [[ "$technology" == "1cellbio-v2" ]] \|\| [[ "$technology" == "1cellbiov2" ]]; then
		echo "Running with inDrop parameters (version 2 with reads inverted)"
		technology="indrop-v2"
		fi
		if [[ "$technology" == "indrop-v3" ]] \|\| [[ "$technology" == "indrops-v3" ]] \|\| [[ "$technology" == "indropv3" ]] \|\| [[ "$technology" == "indropsv3" ]]; then
		if [[ "$technology" == "indrop-v3" ]] \|\| [[ "$technology" == "indrops-v3" ]] \|\| [[ "$technology" == "indropv3" ]] \|\| [[ "$technology" == "indropsv3" ]] \|\| [[ "$technology" == "1cellbio-v3" ]] \|\| [[ "$technology" == "1cellbiov3" ]]; then
		echo "Running with inDrop parameters (version 3 with reads inverted)"
		technology="indrop-v3"
		fi

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