scATAC-seq Count Matrix Filtering
1.0

Workflow Type: Galaxy

Associated Tutorial

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

Features

Thanks to...

Workflow Author(s): Pavankumar Videm

Tutorial Author(s): Pavankumar Videm

Tutorial Contributor(s): Cristóbal Gallardo, Pavankumar Videm, Björn Grüning, Helena Rasche, Mehmet Tekman, Wendi Bacon, Timon Schlegel

gtn star logo followed by the word workflows

Inputs

ID Name Description Type
scATAC-seq Anndata scATAC-seq Anndata n/a
  • File

Steps

ID Name Description
1 scATAC-seq Preprocessing toolshed.g2.bx.psu.edu/repos/iuc/episcanpy_preprocess/episcanpy_preprocess/0.3.2+galaxy1
2 scATAC-seq Preprocessing toolshed.g2.bx.psu.edu/repos/iuc/episcanpy_preprocess/episcanpy_preprocess/0.3.2+galaxy1
3 scATAC-seq Preprocessing toolshed.g2.bx.psu.edu/repos/iuc/episcanpy_preprocess/episcanpy_preprocess/0.3.2+galaxy1
4 Plot toolshed.g2.bx.psu.edu/repos/iuc/scanpy_plot/scanpy_plot/1.7.1+galaxy1
5 scATAC-seq Preprocessing toolshed.g2.bx.psu.edu/repos/iuc/episcanpy_preprocess/episcanpy_preprocess/0.3.2+galaxy1
6 scATAC-seq Preprocessing toolshed.g2.bx.psu.edu/repos/iuc/episcanpy_preprocess/episcanpy_preprocess/0.3.2+galaxy1
7 scATAC-seq Preprocessing toolshed.g2.bx.psu.edu/repos/iuc/episcanpy_preprocess/episcanpy_preprocess/0.3.2+galaxy1
8 scATAC-seq Preprocessing toolshed.g2.bx.psu.edu/repos/iuc/episcanpy_preprocess/episcanpy_preprocess/0.3.2+galaxy1
9 scATAC-seq Preprocessing toolshed.g2.bx.psu.edu/repos/iuc/episcanpy_preprocess/episcanpy_preprocess/0.3.2+galaxy1
10 scATAC-seq Preprocessing toolshed.g2.bx.psu.edu/repos/iuc/episcanpy_preprocess/episcanpy_preprocess/0.3.2+galaxy1
11 scATAC-seq Preprocessing toolshed.g2.bx.psu.edu/repos/iuc/episcanpy_preprocess/episcanpy_preprocess/0.3.2+galaxy1
12 Plot toolshed.g2.bx.psu.edu/repos/iuc/scanpy_plot/scanpy_plot/1.7.1+galaxy1

Version History

1.0 (earliest) Created 2nd Jun 2025 at 10:56 by GTN Bot

Added/updated 4 files


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Created: 2nd Jun 2025 at 10:56

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