Workflow Type: Galaxy
Frozen
Stable
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 Depreciated: use individual workflows insead for multiple samples
Steps
ID | Name | Description |
---|---|---|
7 | scRNAseq: Count and Load with Cell Ranger | n/a |
8 | scRNAseq_CellQC | n/a |
9 | scRNAseq_QCtoBasicProcessing | n/a |
Version History
main @ abc9384 (earliest) Created 9th Nov 2023 at 01:30 by Sarah Williams
now with cellranger pipelines
Frozen
main
abc9384
Creators and Submitter
Creators
Submitter
Citation
Williams, S., Thang, M., & Murigneaux, V. (2023). {scRNAseq on galaxy workflows}.
License
Other (Not Open)
Activity
Views: 3485 Downloads: 198 Runs: 2
Created: 9th Nov 2023 at 01:30
Last updated: 30th May 2024 at 06:56
Tags
Attributions
None
Collections