Workflow Type: Galaxy
Work-in-progress

From the R1 and R2 fastq files of a single samples, make a scRNAseq counts matrix, and perform basic QC with scanpy. Then, do further processing by making a UMAP and clustering. Produces a processed AnnData

Steps

ID Name Description
11 scRNAseq: Count and Load with starSOLO n/a
12 scRNAseq_CellQC n/a
13 scRNAseq_QCtoBasicProcessing n/a

Version History

main @ fe052c0 (latest) Created 12th Dec 2023 at 03:15 by Sarah Williams

updated star solo index size to limit RAM useage since galaxy migration


Frozen main fe052c0

main @ 03682c0 Created 9th Nov 2023 at 01:58 by Sarah Williams

some differences in single sample workflows updated


Frozen main 03682c0

main @ a95a4ee Created 22nd Jun 2023 at 07:36 by Sarah Williams

counts matrix workflow doc, affiliations


Frozen main a95a4ee

master @ 76f52ed (earliest) Created 5th May 2023 at 07:29 by Sarah Williams

count and load


Frozen master 76f52ed
help Creators and Submitter
Creators
  • Sarah Williams
  • Mike Thang
  • Valentine Murigneaux
Submitter
Activity

Views: 5061   Downloads: 694   Runs: 0

Created: 5th May 2023 at 07:29

Last updated: 30th May 2024 at 06:54

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