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aertslab
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scenicplus
SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) and single-cell chromatin accessibility (scATAC-seq) data.
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Consider publishing the package to PyPI ?
#220
jkanche
opened
10 months ago
1
build_grn doesnt produce results **ValueError: No objects to concatenate
#214
momur
opened
10 months ago
62
Dockerfile does not build
#213
dtenenba
opened
10 months ago
0
AssertionError: The dataframe does not have all the columns Chromosome, Start and End.
#209
crossworlds423
opened
10 months ago
1
juypt notebooks and python scripts that use scenicplus on linux systems
#208
crossworlds423
closed
10 months ago
2
using scenicplus
#207
crossworlds423
opened
10 months ago
4
Error in nn_descent_internal_low_memory_parallel associated with numba
#203
angeyang123
opened
10 months ago
8
coverageplot does not show gene body, exon, etc
#201
mervedede
closed
10 months ago
0
regulon score seen in the .p fildes
#200
GeneVector5
closed
10 months ago
0
How to build the final gene regulation network as the same cytoscape style (or other app) in the published paper.?
#199
JGangHan
closed
10 months ago
0
multiple unhandled error at run_scenicplus()
#198
pchiang5
closed
10 months ago
1
run_pycistarget() starts but never delivers results (local run)
#196
Sebdumas
opened
10 months ago
4
AttributeError: ('PyRanges object has no attribute', 'Overlap')
#195
pchiang5
closed
10 months ago
4
Linux installation Error
#193
GeneVector5
opened
11 months ago
24
how to install SCENIC+ on LINUX Google Cloud VM
#192
GeneVector5
closed
10 months ago
1
Integration of multiple single-cell multiomics samples for GRN construction
#191
Ajeet1699
closed
11 months ago
0
Missing metadata columns in scenicplus object created for non multiome data
#190
mervedede
closed
10 months ago
3
how to exporting when file was too big
#189
rdf1993
closed
11 months ago
5
error in run_scenicplus
#188
rdf1993
closed
11 months ago
6
Singularity cannot install scenicplus.sif, has the container file been deleted?
#187
hgl2017
closed
11 months ago
2
Installing SCENIC+ on M2 MACs - folow up on patch
#186
GeneVector5
closed
11 months ago
1
installation error
#185
GeneVector5
closed
11 months ago
1
1xM DataFrame dimension for
#184
GeneVector5
closed
11 months ago
0
ValueError: Length mismatch: Expected axis has 0 elements, new values have 3 elements
#183
Citugulia40
opened
11 months ago
7
ValueError: A gene signature must have at least one gene.
#182
Citugulia40
opened
11 months ago
5
Bug when running run_cgs_models:
#181
YangLi-Bio
opened
11 months ago
6
msgpack.exceptions.ExtraData: unpack(b) received extra data.
#180
GeneVector5
closed
11 months ago
5
download https://resources.aertslab.org/cistarget/
#179
GeneVector5
opened
11 months ago
2
SCENIC vs SCENIC+
#176
bakhtiararya
closed
11 months ago
0
ValueError: Cannot convert float NaN to integer
#175
Ajeet1699
opened
11 months ago
5
Low "importance" score using RF model comapred to GBM model
#171
piyushjo15
closed
1 year ago
1
A same bug as #146 in compute_qc_stats() under pandas1.5
#168
aaronwolf1995
closed
1 year ago
3
Out of disk space with fallocate error in the run_scenicplus step
#165
Tomoya89
closed
1 year ago
0
Unable to complete run_scenicplus run - deprecated numpy.float in numpy ver > 1.24
#162
loganminhdang
opened
1 year ago
7
How changing the cell annotation influences the SCENIC+ inference?
#160
Priyadarshini-Rai
closed
1 year ago
1
Intersection of gene_names and tf_names is empty
#155
Tomoya89
closed
1 year ago
2
export_pseudobulk error
#151
mtrebelo
opened
1 year ago
4
TF_cistrome_correlation (silently) returns empty DataFrame
#150
fumi-github
opened
1 year ago
1
Cell Type Defining TFs
#149
Sayyam-Shah
closed
1 year ago
0
Stuck at GSEA Step
#148
li-xuyang28
opened
1 year ago
10
Is it possible for us to access the results of pbmc tutorial?
#147
HelloWorldLTY
opened
1 year ago
2
Issue with 10x multiome pbmc tutorial
#146
etiennedanis
closed
1 year ago
6
Error "X has 2 features, but NearestNeighbors is expecting 10 features as input" when running 'plot_perturbation_effect_in_embedding'
#144
WangRong423
opened
1 year ago
1
Change in eRegulons filtering for Heatmap_dotplot
#143
Goultard59
opened
1 year ago
2
No objects to concatenate error, run_scenicplus: "Formatting eGRNs"
#142
SidG13
closed
8 months ago
9
Unable to simulate perturbation with UMAP
#140
Tu4n-ph4m
opened
1 year ago
4
A bug we meet in running scenic
#139
HelloWorldLTY
closed
1 year ago
3
Issue when running pycistarget for custom species zebrafish
#137
JoGraesslin
closed
1 year ago
9
Ray error when running pycistarget
#136
sarah-chapin
opened
1 year ago
3
can I build eGRN with base cistromes
#123
wangmhan
closed
1 year ago
0
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