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PriyamPatel-Northwestern
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scRNA-Seq
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Make cell cycle optional
#71
brianFSM
opened
1 month ago
0
Fix ribo filter variable names
#70
brianFSM
opened
4 months ago
0
Fix all table var name typos
#69
brianFSM
closed
4 months ago
0
"stuff" or "table"
#68
schipma
closed
4 months ago
0
Qc updates doublets sex etc
#67
brianFSM
closed
1 year ago
0
Update scRNA_template_PART3.Rmd
#66
brianFSM
closed
1 year ago
0
Added cell cycle genes file, fixed part3 scaling issue with cell cycle
#65
brianFSM
closed
1 year ago
0
Remove line hard coding single.seurat.object
#64
brianFSM
closed
1 year ago
0
Update scRNA_template_PART3.Rmd
#63
brianFSM
closed
1 year ago
0
Fix single sample bug
#62
brianFSM
closed
1 year ago
0
Bug fixes dec 2022
#61
brianFSM
closed
1 year ago
0
Update batch correction dec 2022
#60
brianFSM
closed
1 year ago
0
Implement sctransform
#59
brianFSM
closed
1 year ago
0
put back part1 5% quantile tables
#58
brianFSM
closed
4 months ago
2
add orig.ident scale data
#57
brianFSM
closed
4 months ago
0
fix max.size calculation
#56
brianFSM
closed
4 months ago
0
Implement sctransform
#55
brianFSM
closed
1 year ago
0
Implement sctransform
#54
brianFSM
closed
1 year ago
0
speed up the saving step
#53
brianFSM
closed
4 months ago
0
Output filename suffix
#52
brianFSM
closed
1 year ago
0
Fix cluster resolution naming in config
#51
brianFSM
opened
1 year ago
0
Fix multithreading
#50
brianFSM
opened
1 year ago
1
Add suffix options to config_template
#49
brianFSM
closed
1 year ago
0
Custom report names
#48
brianFSM
closed
1 year ago
0
Allow for altering output report name in submission script
#47
brianFSM
closed
1 year ago
2
Allow for different integration methods
#46
brianFSM
opened
1 year ago
1
add config param to rmd files
#45
brianFSM
closed
1 year ago
1
Update config file to allow file suffixes
#44
brianFSM
closed
4 months ago
0
Assign numpcs and project.description vars
#43
brianFSM
closed
1 year ago
0
Add navigation side panel
#42
brianFSM
opened
1 year ago
0
Fix marker gene axes, add proj description to reports, fix pc nums
#41
brianFSM
closed
1 year ago
0
Fix x axis on clustering report vlnPlots
#40
brianFSM
closed
1 year ago
1
Include correct number of pcs in clustering report
#39
brianFSM
closed
1 year ago
1
Streamline configs
#38
brianFSM
opened
1 year ago
0
Add description to clustering report
#37
brianFSM
closed
1 year ago
0
Fix single sample error
#36
brianFSM
closed
4 months ago
0
Remove extra import in part 5
#35
brianFSM
closed
1 year ago
1
Fix sparse matrix issue for relative exp in part 1
#34
brianFSM
closed
1 year ago
0
Add marker_gene directory to config file
#33
brianFSM
closed
1 year ago
0
Add instructions to readme for generating reports
#32
brianFSM
closed
1 year ago
0
Config file
#31
brianFSM
closed
2 years ago
0
Add submission scripts
#30
brianFSM
closed
2 years ago
0
Upload submission script
#29
brianFSM
closed
2 years ago
0
Doublet prediction
#28
brianFSM
closed
4 months ago
0
Implemented multithreading for quest compute nodes
#27
brianFSM
closed
2 years ago
0
Added clustering report
#26
brianFSM
closed
2 years ago
0
Parts 3, 4, 5: Save figures for clustering report
#25
brianFSM
closed
2 years ago
0
Upload QC report template
#24
brianFSM
closed
2 years ago
0
saveRDS instead of save
#23
brianFSM
closed
2 years ago
0
Save figures for reports
#22
brianFSM
closed
2 years ago
0
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