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BAUDOTlab
/
scDataPipeline
Reusable standard single-cell RNA sequencing data analysis pipeline
MIT License
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Feat text modification celine
#121
celinech
opened
1 month ago
0
Feat text modificatio0n
#120
celinech
opened
1 month ago
0
exprimental plots
#119
Rumengol
opened
2 months ago
0
fix docker image
#118
Rumengol
closed
2 months ago
0
Fix docker
#117
Rumengol
closed
2 months ago
0
Update globalParameters_MODEL_2_combined.toml (patch-typo-blkS))
#116
PhilippeBaratta
closed
3 months ago
0
Feat meld more plots
#115
Rumengol
closed
3 months ago
0
fix: leiden clustering fails for big dataset -> set method to igraph
#114
celinech
closed
4 months ago
0
Leiden clustering fails for datasets with ~50K cells
#113
celinech
closed
4 months ago
0
Fix variables managment
#112
celinech
closed
3 months ago
0
Feat show parameters
#111
Rumengol
closed
5 months ago
0
Fix: remove existing genes not retrieved from experiments in genes of…
#110
celinech
closed
5 months ago
0
threshold validation in manual filters
#109
Rumengol
closed
5 months ago
0
Plots added to GSEA and improved for DA
#108
Rumengol
closed
5 months ago
0
Version 1 release
#107
Rumengol
closed
5 months ago
0
Increase memory allowance for 'future' package
#106
PhilippeBaratta
closed
5 months ago
1
Fix meld issues
#105
sevdarafatov
closed
5 months ago
0
Harmonize rawdata naming conventions bis
#104
PhilippeBaratta
closed
5 months ago
0
fix bad toml default parameters
#103
Rumengol
closed
5 months ago
1
Fix bug if goi not detected
#102
PhilippeBaratta
closed
5 months ago
0
Harmonize rawdata naming conventions
#101
PhilippeBaratta
closed
5 months ago
0
Perform ctrl step and subsequent process only for specified scenarii
#100
Rumengol
closed
5 months ago
0
Feat visual combine
#99
celinech
closed
5 months ago
0
Fix: run only once the process on good quality cells, on all scenari
#98
celinech
closed
5 months ago
1
Change the DATASET field in combine config file
#97
Rumengol
opened
5 months ago
0
process step creates html file for each scenario
#96
sevdarafatov
closed
5 months ago
1
Fix lapply over scenarios
#95
sevdarafatov
closed
5 months ago
0
fix early singlets removal
#94
Rumengol
closed
5 months ago
1
Fix out file name
#93
celinech
closed
6 months ago
0
Emphasize the observe features part
#92
celinech
closed
6 months ago
0
Fix process good quality
#91
celinech
closed
6 months ago
0
Feat polish
#90
Rumengol
closed
6 months ago
0
Solve marker gene issue
#89
PhilippeBaratta
closed
6 months ago
0
check if OBSERVE_FEATURES is well included in filtered dataset
#88
PhilippeBaratta
closed
6 months ago
0
reorganize YAML headers in 01_qc_pipeline.Rmd to fix warning
#87
PhilippeBaratta
closed
6 months ago
0
when path no found : print a more detailed error
#86
PhilippeBaratta
closed
6 months ago
0
fix tabulation error in yaml front matter
#85
Rumengol
closed
6 months ago
0
assignPath now works with absolute paths and path that are not relati…
#84
Rumengol
closed
6 months ago
0
retrieving output .rds writing
#83
PhilippeBaratta
closed
6 months ago
0
Fix min size condition
#82
celinech
closed
6 months ago
0
Feat fgsea
#81
sevdarafatov
closed
6 months ago
0
Load params sanity check
#80
sevdarafatov
closed
6 months ago
0
Fix random viz
#79
celinech
closed
7 months ago
0
fix: correctly evaluate if PATH_MANUAL_ANNOTATION is set
#78
celinech
closed
7 months ago
0
Fix misc
#77
celinech
closed
7 months ago
0
Fix combine dea
#76
Rumengol
closed
7 months ago
0
Typo correction
#75
sevdarafatov
closed
7 months ago
0
Feat template
#74
celinech
closed
7 months ago
0
Clean residual code
#73
celinech
closed
7 months ago
0
Added DElegate and pseudobulk DEA
#72
Rumengol
closed
7 months ago
0
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