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BayraktarLab
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cell2location
Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)
https://cell2location.readthedocs.io/en/latest/
Apache License 2.0
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cannot import name 'run_regression' from 'cell2location'
#289
limin321
closed
1 year ago
1
Can't open saved .h5ad after cell2location
#288
BenjaminDEMAILLE
opened
1 year ago
4
spatial data model training for bleeding corrected data
#287
parkjooyoung99
opened
1 year ago
1
Idea of modifying model after assessing Reconstruction accuracy plot
#285
parkjooyoung99
closed
1 year ago
4
Error in mod.train
#284
scauzhaos
opened
1 year ago
1
Is it possible to conduct an enrichment analysis with predefined cluster, using cell abundance value?
#283
jeji0209
closed
1 year ago
2
Estimated expression signature QC plot comes out splitted
#282
jeji0209
closed
1 year ago
2
Documentation confusion: add_to_varm and add_to_obs argument of function mod.export_posterior()
#281
sondvo
opened
1 year ago
1
ModuleNotFoundError
#280
Linlinwangwang
opened
1 year ago
1
AttributeError
#279
Linlinwangwang
opened
1 year ago
0
Which quantile to use for the cell type mapping?
#278
ankitbioinfo
opened
1 year ago
3
[pre-commit.ci] pre-commit autoupdate
#277
pre-commit-ci[bot]
closed
1 year ago
0
export_posterior() got an unexpected keyword argument 'add_to_obsm'
#276
kuang-da
opened
1 year ago
3
Cell number
#275
wangjiawen2013
opened
1 year ago
1
Using gpu even when use_gpu=False in cell2location.models.RegressionModel.load()
#273
bhhlee
opened
1 year ago
2
Error in row clustering of run_colocation clustermap
#272
ssobt
closed
1 year ago
3
Difficulties mapping immune cells in brain tumors
#270
lgaspardboulinc31
opened
1 year ago
0
GPU error in mod.train
#269
renyuan1988
opened
1 year ago
3
celltype SC-ST mapping
#266
JingGuo1997
closed
1 year ago
1
Pip downloads
#259
vitkl
closed
1 year ago
0
bug in installing in colab Pygments 2.6.1 Requirement.parse('pygments<3.0.0,>=2.14.0'), {'rich'})
#256
yuanmuqing2000
opened
1 year ago
1
NotImplementedError: The Cell2location model currently does not support minified data.
#253
forrwill
opened
1 year ago
12
`MPSAccelerator` can not run on your system since the accelerator is not available. The following accelerator(s) is available and can be passed into `accelerator` argument of `Trainer`: ['cpu']
#252
AdrianaLecourieux
opened
1 year ago
7
Choosing one N_cells_per_location for multiple samples
#250
ThomasThaewel
closed
1 year ago
0
Cell2location reads raw counts as normalized values
#249
deconvolute
closed
1 year ago
1
Error running plot in spatial coordinates
#245
ChristinaSteyn
closed
1 year ago
1
Error running 'Estimate cell-type specific expression of every gene in the spatial data (needed for NCEM)'
#244
ChristinaSteyn
closed
1 year ago
1
Would the cell type proportion of the reference scRNA-seq dataset affect the performance or results of the deconvolution?
#242
ShaowenJ
closed
1 year ago
1
[pre-commit.ci] pre-commit autoupdate
#241
pre-commit-ci[bot]
closed
1 year ago
0
changed kernel name
#240
vitkl
closed
1 year ago
0
KeyError: 'post_sample_means'
#239
BenjaminDEMAILLE
opened
1 year ago
5
Fix for numeric stability issue
#238
vitkl
closed
1 year ago
0
PyroModule' object has no attribute 'per_cluster_mu_fg_unconstrained'
#237
BenjaminDEMAILLE
opened
1 year ago
3
Cell2Location Tutorial no longer works with release 0.1.2
#236
AlbertPlaPlanas
closed
1 year ago
6
Update environment.yml
#235
yozhikoff
closed
1 year ago
0
Update README.md
#234
vitkl
closed
1 year ago
0
[pre-commit.ci] pre-commit autoupdate
#231
pre-commit-ci[bot]
closed
1 year ago
0
Memory efficient option for export posterior (using quantiles explicitly)
#230
vitkl
closed
1 year ago
1
matrix factorisation (NMF) heatmap
#227
wangjiawen2013
opened
1 year ago
1
cell2location is not compatible with sklearn 1.2.0
#226
wangjiawen2013
closed
1 year ago
3
error in mod.train
#225
wanghf0501
closed
1 year ago
2
imune cell abundance
#224
wangjiawen2013
closed
1 year ago
0
Incompatible Tensor broadcasts with MPS accelerator - Mac M2
#221
NicolasSompairac
opened
1 year ago
5
Add link to FAQ on issues page & NMF compatibility change
#220
vitkl
closed
1 year ago
0
Estimated reference expression signatures
#219
wangjiawen2013
opened
1 year ago
1
reference model retraining
#218
wangjiawen2013
closed
1 year ago
2
Cell2location object has no attribute samples
#217
julie-jch
closed
1 year ago
1
what's scale_average_detection and detection_y_c?
#216
jefferyUstc
opened
1 year ago
1
How to plot images without showing the grid
#215
brianpenghe
closed
1 year ago
2
fixed code style formatting
#214
vitkl
closed
1 year ago
0
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