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aertslab
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SCENIC
SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
http://scenic.aertslab.org
GNU General Public License v3.0
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understanding the regulon output
#158
nfancy
closed
2 years ago
0
Error in get_regulonsAuc(loom) : The argument 'attrName' is not available in this loom file. Possible values include: RegulonsAUC.
#157
charlesgwellem
opened
3 years ago
1
How does Rcistarget utilize two databases for scoring motifs?
#156
KoichiHashikawa
closed
2 years ago
0
Transcription factor for regulon doesnt appear to be a transcription factor
#155
satkins1
closed
2 years ago
1
runGENIE3 function from SCENIC does not produce complete file output.
#154
charlesgwellem
opened
3 years ago
1
error running runSCENIC_2
#153
dsb66
opened
3 years ago
7
runSCENIC_3_scoreCells Valid 'mctype': 'snow' or 'doMC'
#152
XiaofeiSunUCSF
opened
3 years ago
9
Why getting error in executing open_loom command
#151
inayat45shaikh
closed
2 years ago
3
Feather files readable but initializeScenic still throws error
#149
justin-malin
closed
3 years ago
1
Error running runSCENIC_3_scoreCells function
#148
s849
opened
3 years ago
3
Error loading the example SCENIC.loom file
#147
ChenchenWangiSummer
closed
2 years ago
2
Number of TF in my dataset
#146
PernilleYR
closed
2 years ago
0
Why don't the loom file be opened
#145
ClaireZQ
opened
4 years ago
5
runSCENIC_3_scoreCells error
#144
s849
closed
2 years ago
0
Would taking the average scores per cluster in the AUC matrix indicate more activity?
#143
CodeInTheSkies
closed
2 years ago
0
What are the numbers in brackets in the regulon names?
#142
CodeInTheSkies
closed
3 years ago
2
Failed to install 'SCENIC' from GitHub
#141
crebli
opened
4 years ago
0
what mean should be on file 'Step2_regulonTargetsInfo.tsv' colname 'Genie3Weight'?
#140
honghh2018
closed
2 years ago
0
Error when plotting regulon activity by cell type
#139
KatjaRM
opened
4 years ago
4
SHA256sum not matching - wrong feather files?
#138
CodeInTheSkies
closed
2 years ago
3
runSCENIC_2_createRegulons(negative values are not allowed in a matrix subscript)
#137
Jiumeizhu
opened
4 years ago
0
Missing TFs
#136
14lwt1
closed
2 years ago
0
'DataFrame' object has no attribute 'as_matrix'
#135
chansigit
closed
4 years ago
1
runSCENIC_2_createRegulons
#134
1185958508
closed
2 years ago
6
Using SCENIC for rat
#133
singcell
closed
2 years ago
1
How to use SCENIC when comparing dataset representing two conditions?
#132
singcell
closed
2 years ago
3
Error in corrMat[tf, targets] : subscript out of bounds
#130
KabitaBaral1
closed
2 years ago
0
Can I use GRNBoost output to SCENIC R pipline?
#129
lh12565
closed
2 years ago
6
missing 1.6_tfModules_asDF.Rds file
#128
KabitaBaral1
closed
2 years ago
5
Can this R package be applied to bulk RNA sequencing?
#127
panxiaoguang
closed
2 years ago
0
issue running GENIE3 on calculation cluster and scenic on computer
#126
vbouther
closed
2 years ago
1
Error in AUCell_plotTSNE when running runSCENIC4
#125
ianfolkert
closed
2 years ago
3
Error in GENIE3
#123
KabitaBaral1
closed
2 years ago
1
Can TFs that aren't expressed be identified as regulators?
#122
TatyanaLev
closed
2 years ago
0
Cannot find cell information named 'seuratCluster (it should be a column of the 'cellInfo')
#121
lelesama
closed
4 years ago
3
Error in tfModulesSummary[, 2] : subscript out of bounds
#120
yejg2017
opened
4 years ago
2
fileName problem + option overwrite
#119
GildasLepennetier
closed
3 years ago
1
UMAP to replace tSNE
#118
RM-SCB
opened
4 years ago
6
default to UMAP view
#117
paolo-kunderfranco
opened
4 years ago
5
Generating feather file from motif list
#116
kashiff007
closed
2 years ago
1
cisTarget databases related papers
#115
MarcoMatta
closed
2 years ago
1
running runGenie3 using a custom list of TFs
#114
arijita88
closed
2 years ago
7
Is there a function like regulon_specificity_scores in pySCENIC?
#113
Sophia409
closed
2 years ago
1
Why I got regulons with fewer than 20 genes?
#112
Sophia409
closed
2 years ago
3
how to apply SCENIC to another species except for human,mouse and fly
#111
yangmeili1
closed
2 years ago
5
Expected partition of type `DataFrame` but got `NoneType`
#110
anlin00007
closed
2 years ago
2
plot binaryAUC on the reduction plot of a seurat object
#109
pchiang5
closed
3 years ago
2
Error with export2scope function
#108
Sophia409
opened
4 years ago
3
Installation error
#107
ghost
closed
2 years ago
0
Break down the S4 class object of 3.4_regulonAUC.Rds
#106
candacelei
closed
2 years ago
0
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