GTN - Preprocessing of 10X scRNA-seq data
4.0

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Workflow Type: Galaxy

Associated Tutorial

This workflows is part of the tutorial Pre-processing of 10X Single-Cell RNA Datasets, available in the GTN

Workflow Author(s): Wendi Bacon, Pavankumar Videm, Mehmet Tekman, Hans-Rudolf Hotz, Daniel Blankenberg

Tutorial Author(s): Mehmet Tekman, Hans-Rudolf Hotz, Daniel Blankenberg, Pavankumar Videm

Tutorial Contributor(s): Wendi Bacon, Björn Grüning, Donny Vrins, Saskia Hiltemann, Helena Rasche, Pavankumar Videm, Mehmet Tekman, Bérénice Batut, Hans-Rudolf Hotz, Cristóbal Gallardo

SEEK ID: https://workflowhub.eu/workflows/1546?version=1

ID	Name	Description	Type
3M-february-2018.txt.gz	3M-february-2018.txt.gz	n/a	File
Homo_sapiens.GRCh37.75.gtf	Homo_sapiens.GRCh37.75.gtf	n/a	File
Reference Genome	Reference Genome	n/a	string
subset_pbmc_1k_v3_S1_L001_R1_001.fastq.gz	subset_pbmc_1k_v3_S1_L001_R1_001.fastq.gz	n/a	File
subset_pbmc_1k_v3_S1_L001_R2_001.fastq.gz	subset_pbmc_1k_v3_S1_L001_R2_001.fastq.gz	n/a	File
subset_pbmc_1k_v3_S1_L002_R1_001.fastq.gz	subset_pbmc_1k_v3_S1_L002_R1_001.fastq.gz	n/a	File
subset_pbmc_1k_v3_S1_L002_R2_001.fastq.gz	subset_pbmc_1k_v3_S1_L002_R2_001.fastq.gz	n/a	File

ID	Name	Description
7	RNA STARSolo	toolshed.g2.bx.psu.edu/repos/iuc/rna_starsolo/rna_starsolo/2.7.11a+galaxy1
8	DropletUtils DefaultDrops	toolshed.g2.bx.psu.edu/repos/iuc/dropletutils/dropletutils/1.10.0+galaxy2
9	DropletUtils RankBarcodes	toolshed.g2.bx.psu.edu/repos/iuc/dropletutils/dropletutils/1.10.0+galaxy2
10	DropletUtils EmptyDrops	toolshed.g2.bx.psu.edu/repos/iuc/dropletutils/dropletutils/1.10.0+galaxy2