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sagar87
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spatialproteomics
Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly multiplexed immunohistochemistry data. Docs available here: https://sagar87.github.io/spatialproteomics/ .
https://sagar87.github.io/spatialproteomics/
MIT License
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Storing zarrs does not work with merged segmentation
#94
MeyerBender
opened
1 day ago
0
Feature/8bit conversion
#93
MeyerBender
closed
3 days ago
0
added colors to anndata object when exporting
#92
MeyerBender
closed
1 week ago
0
New release: 0.5.3
#91
MeyerBender
closed
1 week ago
0
Feature/napari spatialdata
#90
MeyerBender
closed
1 week ago
0
Feature/interactive cropping
#89
MeyerBender
closed
1 week ago
0
updated notebooks to fit current syntax
#88
MeyerBender
closed
2 weeks ago
0
Neighborhood visualization
#87
MeyerBender
opened
3 weeks ago
0
Add possibility to crop out regions of interest
#86
MeyerBender
closed
1 week ago
2
fixed autocrop by removing the clear_border function
#85
MeyerBender
closed
3 weeks ago
0
Autocrop
#84
MeyerBender
closed
3 weeks ago
1
Spillover correction
#83
MeyerBender
closed
1 month ago
2
Fix/cellpose
#82
MeyerBender
closed
1 month ago
0
Feature/interoperability with spatialdata
#81
MeyerBender
closed
1 month ago
0
added sidenote on Voronoi
#80
MeyerBender
closed
1 month ago
0
removed histogram from pl module
#79
MeyerBender
closed
1 month ago
0
removed the custom histogram
#78
MeyerBender
closed
1 month ago
1
Reframe argmax as Empirical Bayes
#77
MeyerBender
closed
3 weeks ago
0
implemented plotting of continuous obs
#76
MeyerBender
closed
1 month ago
1
Cellpose
#75
MeyerBender
closed
3 weeks ago
5
replaced restore with apply, added documentation for local thresholding
#74
MeyerBender
closed
1 month ago
0
Interoperability
#73
MeyerBender
closed
1 month ago
1
Rename restore function
#72
MeyerBender
closed
1 month ago
1
Voronoi tessellation
#71
MeyerBender
closed
1 month ago
1
Parametric maps
#70
MeyerBender
closed
1 month ago
2
Feature/diagnostic plots
#69
MeyerBender
closed
1 month ago
0
Implemented different expression matrix transformations
#68
MeyerBender
closed
1 month ago
0
added plotting of continuous variables
#67
MeyerBender
closed
1 month ago
0
Add normalization methods on the expression matrix
#66
MeyerBender
closed
1 month ago
1
Add diagnostics plots
#65
MeyerBender
closed
1 month ago
3
Interactivity with napari
#64
MeyerBender
closed
1 week ago
2
Preprocessing with skimage and scikit
#63
MeyerBender
closed
1 month ago
2
Plotting of continuous variables
#62
MeyerBender
closed
1 month ago
1
Fix/threshold
#61
MeyerBender
closed
2 months ago
0
bumped version to 0.5.2
#60
MeyerBender
closed
2 months ago
0
Docs/notebook updates
#59
MeyerBender
closed
2 months ago
0
added support for background color when rendering multiple channels
#58
MeyerBender
closed
2 months ago
0
Feature/apply
#57
MeyerBender
closed
2 months ago
0
xarray currently doesn't support numpy = 2.0
#56
p-smirnov
closed
2 months ago
1
added function to read from spatialdata directly
#55
MeyerBender
closed
3 months ago
0
synced segmentation masks with selected cells when selecting with la
#54
MeyerBender
closed
3 months ago
0
Add tl.read_from_spatialdata()
#53
MeyerBender
closed
3 months ago
0
Implement watershed
#52
MeyerBender
closed
2 months ago
1
Bug in la selection
#51
MeyerBender
closed
3 months ago
0
Skimage wrapper function
#50
MeyerBender
closed
2 months ago
1
Issue with background color
#49
MeyerBender
closed
2 months ago
3
Minor bugfixes
#48
MeyerBender
closed
3 months ago
0
implement absolut intensity filtering
#47
sagar87
closed
3 months ago
0
Feature/mesmer
#46
MeyerBender
closed
3 months ago
1
Refactor/add labels
#45
MeyerBender
closed
3 months ago
0
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