Workflow Type: Galaxy
Stable

Take a scRNAseq counts matrix from a single sample, and perform basic QC with scanpy. Then, do further processing by making a UMAP and clustering. Produces a processed AnnData object.

Depreciated: use individual workflows insead for multiple samples

Steps

ID Name Description
8 scRNAseq: Load counts matrix n/a
9 scRNAseq_CellQC n/a
10 scRNAseq_QCtoBasicProcessing n/a

Version History

main @ 7581788 (latest) Created 30th May 2024 at 06:19 by Sarah Williams

Updated workflow versions for anndata version conflict bugfix


Frozen main 7581788

main @ 03682c0 Created 9th Nov 2023 at 01:56 by Sarah Williams

some differences in single sample workflows updated


Frozen main 03682c0

main @ a95a4ee (earliest) Created 22nd Jun 2023 at 07:50 by Sarah Williams

counts matrix workflow doc, affiliations


Frozen main a95a4ee
help Creators and Submitter
Creators
  • Sarah Williams
  • Mike Thang
  • Valentine Murigneaux
Submitter
Citation
Williams, S., Thang, M., & Murigneaux, V. (2023). {scRNAseq on galaxy workflows}.
License
Activity

Views: 4353   Downloads: 437   Runs: 1

Created: 22nd Jun 2023 at 07:50

Last updated: 30th May 2024 at 06:55

Annotated Properties
Topic annotations
Operation annotations
help Tags
help Attributions

None

Total size: 3.75 MB
Powered by
(v.1.16.0-main)
Copyright © 2008 - 2024 The University of Manchester and HITS gGmbH