add settings for Quartz-Seq2 (52d1d64b) · Commits · github_fork / Universc

launch_universc.sh

+15 −0

Original line number	Diff line number	Diff line
		@@ -441,6 +441,15 @@ if [[ "$technology" == "dropseq" ]] \|\| [[ "$technology" == "drop-seq" ]]; then
		echo "Running with Nadia parameters (Drop-Seq)"
		technology="nadia"
		fi
		if [[ "$technology" == "quartz-seq2-384" ]] \|\| [[ "$technology" == "quartzseq2-384" ]] \|\| [[ "$technology" == "quartz-seq2-v3.1" ]] \|\| [[ "$technology" == "quartzseq2-v3.1" ]] \|\| [[ "$technology" == "quartzseq2v3.1" ]];; then
		echo "Running with Quartz-Seq2 v3.1 parameters 384 wells (14bp barcode)"
		technology="quartz-seq2-384"
		fi

		if [[ "$technology" == "quartz-seq2-1536" ]] \|\| [[ "$technology" == "quartzseq2-1536" ]] \|\| [[ "$technology" == "quartz-seq2-v3.2" ]] \|\| [[ "$technology" == "quartzseq2-v3.2" ]] \|\| [[ "$technology" == "quartzseq2v3.2" ]];; then
		echo "Running with Quartz-Seq2 v3.2 parameters 1536 wells (15bp barcode)"
		technology="quartz-seq2-1536"
		fi

		#check if technology matches expected inputs
		if [[ "$technology" != "10x" ]] && [[ "$technology" != "nadia" ]] && [[ "$technology" != "icell8" ]]; then
		@@ -768,6 +777,12 @@ elif [[ "$technology" == "nadia" ]]; then
		elif [[ "$technology" == "icell8" ]]; then
		barcodelength=11
		umilength=14
		elif [[ "$technology" == "quartz-seq2-384" ]]; then
		barcodelength=14
		umilength=8
		elif [[ "$technology" == "quartz-seq2-1536" ]]; then
		barcodelength=15
		umilength=8
		else
		barcodelength=`echo $technology \| cut -f 2 -d'_'`
		umilength=`echo $technology \| cut -f 3 -d'_'`