Loading launch_universc.sh +9 −2 Original line number Diff line number Diff line Loading @@ -69,8 +69,15 @@ Mandatory arguments to long options are mandatory for short options too. -i, --id ID A unique run id, used to name output folder -d, --description TEXT Sample description to embed in output files. -r, --reference DIR Path of directory containing 10x-compatible reference. -t, --technology PLATFORM Name of technology used to generate data (10x, chromium, nadia, dropseq, icell8, or custom) e.g. custom_16_10 -t, --technology PLATFORM Name of technology used to generate data. Supported technologies: 10x Genomics (16bp barcode, 10bp UMI): 10x, chromium (v2 or v3 automatically detected) Drop-Seq (12pb barcode, 8pm UMI): nadia, dropseq iCell8 version 3 (11bp barcode, 14bp UMI): icell8 or custom Quartz-Seq2 (14bp barcodes, 8bp UMI): quartzseq2-384 Quartz-Seq2 (15bp barcodes, 8bp UMI): quartzseq2-1536 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) -c, --chemistry CHEM Assay configuration, autodetection is not possible for converted files: 'SC3Pv2' (default), 'SC5P-PE', or 'SC5P-R2' Loading Loading
launch_universc.sh +9 −2 Original line number Diff line number Diff line Loading @@ -69,8 +69,15 @@ Mandatory arguments to long options are mandatory for short options too. -i, --id ID A unique run id, used to name output folder -d, --description TEXT Sample description to embed in output files. -r, --reference DIR Path of directory containing 10x-compatible reference. -t, --technology PLATFORM Name of technology used to generate data (10x, chromium, nadia, dropseq, icell8, or custom) e.g. custom_16_10 -t, --technology PLATFORM Name of technology used to generate data. Supported technologies: 10x Genomics (16bp barcode, 10bp UMI): 10x, chromium (v2 or v3 automatically detected) Drop-Seq (12pb barcode, 8pm UMI): nadia, dropseq iCell8 version 3 (11bp barcode, 14bp UMI): icell8 or custom Quartz-Seq2 (14bp barcodes, 8bp UMI): quartzseq2-384 Quartz-Seq2 (15bp barcodes, 8bp UMI): quartzseq2-1536 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) -c, --chemistry CHEM Assay configuration, autodetection is not possible for converted files: 'SC3Pv2' (default), 'SC5P-PE', or 'SC5P-R2' Loading
