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BodenmillerGroup
/
ImcSegmentationPipeline
A pixel classification based multiplexed image segmentation pipeline
https://bodenmillergroup.github.io/ImcSegmentationPipeline/
MIT License
83
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Index Error in 3_measure_mask.cppipe
#40
hfl112
closed
4 years ago
4
Error with load zip file
#39
hfl112
closed
4 years ago
2
[WIP] Implement Pipeline as Snakemake workflow
#38
votti
closed
2 years ago
1
Citation
#37
afrendeiro
closed
4 years ago
2
ilastik project
#36
SchulzDan
closed
4 years ago
1
Fixes the imctoools version to v1.0.7
#35
votti
closed
4 years ago
0
Added link to UGM slides in README.md
#34
ndamond
closed
4 years ago
0
Issue converting mcd containing folders into imc zip folders
#33
cassandraman
closed
4 years ago
2
Issue running 1_prepare_ilastik_edit
#32
bitttyyyy
closed
4 years ago
2
histocat doesn't open output histocat file
#31
minhtran1309
closed
4 years ago
2
Additional instructions to make pipeline work
#30
votti
closed
4 years ago
0
ImportError: DLL load failed: The specified module could not be found.
#29
cw739
closed
4 years ago
1
Nothing happens when opening 'ImcSegmentationPipeling/scripts/imc_preprocessig.ipynb'
#28
amoble
closed
4 years ago
1
Jupyter notebook won't launch
#27
sarahjconley
closed
4 years ago
11
`probability2uncertainty` script `cannot compress LZW`
#26
votti
closed
4 years ago
0
CellProfiler "Load Pipeline" Error
#25
juliannehoeflich
closed
4 years ago
2
basic question: how to add imctools to conda using a PC
#24
blueequinox
closed
5 years ago
1
Export cell outline as .tiff
#23
toobiwankenobi
closed
2 years ago
2
Export cell outline as .tiff image
#22
toobiwankenobi
closed
5 years ago
0
Cell Outline Export
#21
toobiwankenobi
closed
5 years ago
1
Histocat Inquiry
#20
juliannehoeflich
closed
4 years ago
3
Error in generating the histocat folder with masks
#19
cassandraman
closed
5 years ago
3
zipfile error
#18
al-khalidi
closed
4 years ago
3
Github does not render ipynb
#17
votti
closed
5 years ago
1
Running everything fully automated
#16
votti
closed
2 years ago
2
Add a `How to adapt workflow to new data` section
#15
votti
closed
4 years ago
2
Add a well trained example ilastik classifier to the example data
#14
votti
closed
2 years ago
1
comments on readme and example run through
#13
glynnelson
closed
4 years ago
7
example data
#12
goodforthebrain
closed
4 years ago
8
Script: Rename Input folders -> Configurations
#11
votti
closed
4 years ago
0
Wrong command to start notebook
#10
votti
closed
4 years ago
0
The ordinal 191 could not be located in the dynamic link library imctools/Library/bin/mkl_intel_thread.dll
#9
zamlerd
closed
4 years ago
2
Looking for 201805_cp_segmentation_example imc_full_sm.tiff
#8
arcolombo
closed
2 years ago
3
NaNs not allowed with masked objects
#7
razaalipath
closed
4 years ago
0
Moving the configurations in a configuration file
#6
votti
closed
2 years ago
1
Better error handling
#5
votti
opened
5 years ago
5
Conda doesnt install imctools in Mac
#4
Rcasan
closed
3 years ago
5
Jupyter notebook error: no module named 'imctools'
#3
SteveBoothHLI
closed
5 years ago
5
Error Processing imctools in Conda
#2
halbrindley
closed
5 years ago
3
Question about H5 output in the imcSegmentation Pipeline
#1
arcolombo
closed
5 years ago
4
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