Merge requests · loosolab

Draft: Motif enrichment

loosolab/software/sc_framework!117 · created Apr 19, 2023 by Mette Bentsen dev
- Closed
- 1
updated Dec 15, 2023
added whitelist of marker types

loosolab/software/metadata_whitelists!7 · created Apr 14, 2023 by Micha-Frederick Kessler
- Merged
- Approved
updated Apr 14, 2023
Resolve "Interactive OC: Improve visualization to prevent confusion."

loosolab/software/sc_framework!116 · created Apr 12, 2023 by Mette Bentsen dev
Discussion
- Merged
- 2
- Approved
updated Apr 14, 2023
Fix check barcode tag

loosolab/software/sc_framework!115 · created Apr 11, 2023 by Rene Wiegandt dev
ATAC
updated Apr 12, 2023
Resolve "Integrate global output path into sctoolbox"

loosolab/software/sc_framework!114 · created Mar 31, 2023 by Mette Bentsen Notebook analysis output structure (+ internal adata location) dev
- Merged
- 9
updated May 15, 2023
Resolve "notebook 5: pybiomart is a missing dependency" + code in sctoolbox

loosolab/software/sc_framework!113 · created Mar 30, 2023 by Mette Bentsen Initial version 0.1 to main dev
ATAC Dependency issue
- Merged
- 21
- Approved
updated May 24, 2023
nucleosomal_score and additional features and fixes

loosolab/software/sc_framework!112 · created Mar 30, 2023 by Jan Detleffsen dev
- Merged
- 4
- Approved
updated Apr 28, 2023
Test data config

loosolab/software/scRNAseq.preprocessing!19 · created Mar 30, 2023 by Hendrik Schultheis dev
- Merged
- 2
- Approved
updated Mar 31, 2023
Update whitelists/department, whitelists/organization, whitelists/cluster,...

loosolab/software/metadata_whitelists!6 · created Mar 28, 2023 by Jasmin Walter
- Merged
updated Mar 28, 2023
Resolve "PCA/ UMAP bug"

loosolab/software/sc_framework!111 · created Mar 21, 2023 by Mette Bentsen dev
Bug RNA
- Merged
updated Mar 23, 2023
Resolve "Search t-sne parameters"

loosolab/software/sc_framework!110 · created Mar 20, 2023 by Rene Wiegandt dev
RNA
- Merged
- 13
- Approved
updated Apr 12, 2023
implement function to calculate cell cycle scores

loosolab/software/sc_framework!109 · created Mar 20, 2023 by Yousef Alayoubi Initial version 0.1 to main dev
RNA
- Merged
- 26
- Approved
updated May 12, 2023
Update from dev to main (v0.1.0)

loosolab/software/sc_framework!108 · created Mar 17, 2023 by Mette Bentsen Initial version 0.1 to main
- Merged
updated May 22, 2023
Rename notebooks

loosolab/software/sc_framework!107 · created Mar 17, 2023 by Mette Bentsen dev
- Merged
updated Mar 17, 2023
add function to score cells based on a list of genes

loosolab/software/sc_framework!106 · created Mar 14, 2023 by Yousef Alayoubi Initial version 0.1 to main dev
RNA
- Merged
- 19
- Approved
updated May 12, 2023
Fix unique sample keys in config.

loosolab/software/scRNAseq.preprocessing!18 · created Mar 07, 2023 by Hendrik Schultheis
- Merged
- 1
- Approved
updated Mar 28, 2023
Remove output from notebooks

loosolab/software/sc_framework!105 · created Feb 27, 2023 by Mette Bentsen dev
- Merged
- 5
- Approved
updated Mar 16, 2023
Resolve "Extend STAR parameters to adjust UMI filter stringency"

loosolab/software/scRNAseq.preprocessing!17 · created Feb 27, 2023 by Mette Bentsen dev
To Do
- Merged
- 6
- Approved
updated Mar 15, 2023
Resolve "normalize pseudobulk_table()"

loosolab/software/sc_framework!104 · created Feb 14, 2023 by Mette Bentsen dev
Feature request
- Merged
- 2
- Approved
updated Feb 20, 2023
added 3d html plot to notebook 4

loosolab/software/sc_framework!103 · created Feb 10, 2023 by Mario Looso dev
- Merged
- 1
- Approved
updated Feb 13, 2023