Workflow Type: Galaxy
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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
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main
7581788
main @ 03682c0 Created 9th Nov 2023 at 01:56 by Sarah Williams
some differences in single sample workflows updated
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main
03682c0
main @ a95a4ee (earliest) Created 22nd Jun 2023 at 07:50 by Sarah Williams
counts matrix workflow doc, affiliations
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main
a95a4ee
Creators and Submitter
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Citation
Williams, S., Thang, M., & Murigneaux, V. (2023). {scRNAseq on galaxy workflows}.
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Views: 4353 Downloads: 437 Runs: 1
Created: 22nd Jun 2023 at 07:50
Last updated: 30th May 2024 at 06:55
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