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labsyspharm
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scimap
Spatial Single-Cell Analysis Toolkit
https://scimap.xyz/
MIT License
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CODEX dataset with 200 images
#119
andreevg04
opened
2 weeks ago
4
feat: adding conda package build recipe
#118
ruiheesi
closed
3 weeks ago
1
spatial_interaction - issues with rare cell type handling
#117
gesavoigt
opened
3 weeks ago
0
Using SCIMAP with MERFISH or Visium data
#116
poloarol
opened
1 month ago
1
return_data not working for plots
#115
LukasHats
opened
2 months ago
1
spatial interaction z scores
#113
YuanningEric
opened
3 months ago
0
kernel keep dying
#112
jianxinwang
opened
3 months ago
3
Implicit change in matplotlib parameters while importing scimap
#111
ConstensouxAlexis
closed
3 months ago
3
Inquiry on Handling Imbalanced CODEX Data for Cellular Neighborhood Calculations in Scimap
#110
Yuchen588
opened
3 months ago
5
Fixed str dtype for Unknown cells, Closes #107
#109
emmanuel-contreras
closed
4 months ago
1
overlapping legend on sm.pl.heatmap when constrained_layout set to True, and default arguments
#108
emmanuel-contreras
closed
3 months ago
6
TypeError: Feature names are only supported if all input features have string names, but your input has ['str', 'str_'] when running sm.tl.spatial_cluster
#107
emmanuel-contreras
closed
4 months ago
1
sm.pp.rescale and sm.tl.phenotype for phenotyping not adhering to user-dfined gates
#106
LukasHats
closed
4 months ago
6
Gating QC plots no longer implemented in scimap.pp.rescale()
#105
CameronFRWatson
opened
5 months ago
0
Minor edits to paper
#104
csoneson
closed
5 months ago
0
Update classify.py
#103
sarafiller
closed
6 months ago
1
spatial_lda reproducibility
#102
batukav
opened
6 months ago
0
Package test coverage
#101
jluethi
closed
5 months ago
7
How do I run the tests?
#100
kevinyamauchi
closed
7 months ago
4
"command not found: pipx" when setting up development environment
#99
kevinyamauchi
closed
7 months ago
2
.vscode in the repo
#98
kevinyamauchi
closed
7 months ago
2
upgrade the latest version
#97
yas92
closed
7 months ago
3
Bug in PIP INSTALL SCIMAP
#96
virlyananda
closed
7 months ago
21
Fixed _classify.py bugs
#95
sarafiller
closed
8 months ago
0
Bump black from 19.10b0 to 24.3.0
#94
dependabot[bot]
closed
8 months ago
0
Napari doesnt open and code crashes.
#93
andreevg04
closed
7 months ago
5
np.warnings.filterwarnings('ignore') no longer supported by numpy
#92
milesbailey121
closed
9 months ago
3
Numpy ArrayMemoryError
#91
lukezhang-811
closed
7 months ago
1
Bump aiohttp from 3.9.0 to 3.9.2
#90
dependabot[bot]
closed
8 months ago
0
Bump aiohttp from 3.8.6 to 3.9.0
#89
dependabot[bot]
closed
9 months ago
0
Interpretibility of adata.uns['spatial_interaction']
#88
Dillon214
opened
10 months ago
1
Bump pillow from 10.1.0 to 10.2.0
#87
dependabot[bot]
closed
9 months ago
0
Bump jinja2 from 3.1.2 to 3.1.3
#86
dependabot[bot]
closed
9 months ago
0
batch samples analysis
#85
yas92
opened
11 months ago
3
Apply MIT license
#84
jmuhlich
closed
11 months ago
0
adata.raw.X vs. adata.X
#83
josenimo
closed
7 months ago
1
%gui qt not running (M2)
#82
virlyananda
closed
7 months ago
2
Added functionality to sm.hl.classify()
#81
sarafiller
closed
1 year ago
0
Added functionality to classify helper function
#80
sarafiller
closed
1 year ago
0
Napari automatically downsamples image when using sm.pl.gate_finder()
#79
MargotCh
opened
1 year ago
3
Bump urllib3 from 1.26.15 to 1.26.18
#78
dependabot[bot]
closed
11 months ago
1
Bump urllib3 from 1.26.15 to 1.26.17
#77
dependabot[bot]
closed
1 year ago
1
Installation problem on Mac
#76
anaskach
closed
1 year ago
0
How can I get the test p value of two groups when comparing the distances between two cell types
#75
sailseem
opened
1 year ago
1
Wrong figure in the "Getting Started with Scimap" tutorial
#74
ziyuanzhao2000
closed
7 months ago
1
not maching gating area with the image
#73
Elena983
opened
1 year ago
1
Can I gate .qptiff image?
#72
xyin0918
opened
1 year ago
1
spatial_lda and recurrent cellular neighborhoods
#71
batukav
opened
1 year ago
4
how to export the particular data file about the distance calculation
#70
sailseem
opened
1 year ago
1
mcmicro_to_scimap add a condition to error out if multiple dim CSV files are provided
#69
pantsm
opened
1 year ago
0
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