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aertslab
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SCopeLoomR
R package (compatible with SCope) to create generic .loom files and extend them with other data e.g.: SCENIC regulons, Seurat clusters and markers, ...
MIT License
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#40
xiaocong3333
opened
1 year ago
1
Adding SCENIC AUC matrix is not working
#39
saeedfc
opened
1 year ago
0
example for get_clusterings output format?
#38
dmsalsgh97
opened
1 year ago
0
Error during loom export from SCENIC
#37
jeremycfd
opened
2 years ago
0
add_embeddings error
#36
Jay-Leung
opened
2 years ago
0
Should be Seurat, not seurat in DESCRIPTION file.
#35
liqg
opened
3 years ago
0
Link to a rendered version of the vignette & vignette version
#34
cflerin
closed
3 years ago
2
adding seurat clusters & annotations fixed
#33
tropfenameimer
closed
3 years ago
0
Adding new embedding can fail when new embedding has as id the total number of embeddings
#32
dweemx
closed
3 years ago
1
add_seurat_clustering is not working
#31
saeedfc
opened
3 years ago
11
problems converting a .csv file into loomfile, which can be manipulated with SCopeLoomR
#30
WinklerLaura
closed
3 years ago
25
Getting clusterings with name fails when one clustering not present in global metadata
#29
dweemx
closed
3 years ago
0
Row names are missing from the clustering data.frames of some .loom files
#28
dweemx
closed
3 years ago
0
Inconsistency between get_ and add_ regulons (AUC)
#27
s-aibar
closed
3 years ago
1
Missing "matrix" object in "w" mode
#26
dweemx
closed
3 years ago
0
build_loom function error
#25
hzongyao
closed
3 years ago
1
getMarkerGenes function
#24
cbravo93
closed
3 years ago
1
why the SCopeLoomR showing not get_regulons function
#23
honghh2018
closed
3 years ago
4
Added helpful suggestions for get_regulons functions
#22
cflerin
closed
3 years ago
1
Error in function "open_loom"
#21
Beyondvisible
closed
3 years ago
6
remove *Rdata from .Rbuildignore
#20
evanbiederstedt
closed
3 years ago
1
What do superposition OR AND mean in SCope Compare part?
#19
sygongcode
closed
4 years ago
2
Error trying to open a loom file that is the output of pySCENIC
#18
gilhornung
closed
3 years ago
9
Bug in conversion to loom v3
#17
cbravo93
closed
4 years ago
1
Bug on getting the regulons when motif-based and track-based regulons are present in the loom
#16
dweemx
closed
3 years ago
0
add_seurat_clustering fails when clusters are not integers
#15
KatjaRM
closed
4 years ago
9
loom v3
#14
cbravo93
closed
4 years ago
1
Bug on cluster annotation from Seurat object
#13
cbravo93
opened
4 years ago
0
Bug on add_seurat_clustering() for Seurat v3 objects
#12
cbravo93
closed
4 years ago
2
Error adding scenic results
#11
hummuscience
closed
3 years ago
6
could not find function "get_cellAnnotation"
#10
yingyonghui
closed
5 years ago
7
How to convert the loom file to seurat object?
#9
Sophia409
closed
3 years ago
4
How to get metadata?
#8
Sophia409
closed
5 years ago
3
Cannot add Seurat Embeddings
#7
saeedfc
closed
5 years ago
10
How to send query loom files through gene names and not through Gene ID
#6
abhisheksinghnl
opened
5 years ago
1
adding metadata to loom files
#5
abhisheksinghnl
closed
5 years ago
2
Metadata Display
#4
sedjro
closed
5 years ago
1
Issue with building a .loom from a sparseMatrix (e.g.: dgCMatrix) stored in SingleCellExperiment objects
#3
abhisheksinghnl
closed
5 years ago
9
Installation error
#2
abhisheksinghnl
closed
5 years ago
6
Installation issue
#1
KoichiHashikawa
closed
3 years ago
18