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BodenmillerGroup
/
ImcSegmentationPipeline
A pixel classification based multiplexed image segmentation pipeline
https://bodenmillergroup.github.io/ImcSegmentationPipeline/
MIT License
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write() got an unexpected keyword argument 'compress'
#90
olivierbortolotti
closed
2 years ago
4
sort analysis stack channels by mass (closes #88)
#89
jwindhager
closed
2 years ago
2
Channel order in pre-trained ilastik classifier
#88
nilseling
closed
2 years ago
3
v3
#87
jwindhager
closed
2 years ago
6
Addition of documentation and adjustment to pipeline
#86
nilseling
closed
2 years ago
0
v3
#85
jwindhager
closed
2 years ago
13
p values for neighborhood analysis
#84
Bunmi0616
closed
2 years ago
3
First steps in Jupyter for MCD pre-processing?
#83
DOCroit
closed
2 years ago
2
Add deprecation note
#82
votti
closed
2 years ago
4
No session JSON files available
#81
edtruelove1
closed
2 years ago
2
How to perform the analysis without histocat?
#80
luglilab
closed
2 years ago
2
Assertion Error in imc_preprocessing
#79
marinabroz
closed
2 years ago
3
Fluorescence image analysis?!?!
#78
sittnerr
closed
2 years ago
1
setup problem
#77
sittnerr
closed
2 years ago
8
ilastik classification
#76
sailseem
closed
2 years ago
2
error in 1_prepare_ilastik
#75
simeonmayala
closed
2 years ago
1
Error while running IMCtools
#74
raman91
closed
2 years ago
1
where to download example mcd data
#73
sailseem
closed
2 years ago
6
Export Scaling_FullStackFiltered
#72
nilseling
closed
2 years ago
4
Generation of histocat folders with mask
#71
veenstje
closed
2 years ago
3
Removed all quotation marks from pipelines
#70
nilseling
closed
3 years ago
1
Error in initial pipeline with example data
#69
veenstje
closed
2 years ago
4
Error in cell under Copy one csv containing the channel order of the full stack in to the cellprofiler input folder
#68
rachel662
closed
2 years ago
2
implementation of mcd file checks
#67
SchulzDan
closed
3 years ago
2
'ascii' codec can't encode character '\u2019' in position 7240: ordinal not in range(128)
#66
nilseling
closed
3 years ago
2
Fix image rescaling bug
#65
votti
closed
3 years ago
1
CP4 pipeline error
#64
SchulzDan
closed
3 years ago
1
Panel import with manually opened channels
#63
lecords
closed
2 years ago
4
Key Error when using own data
#62
hannahetompkins
closed
2 years ago
13
Move spillover matrix and panel to example data
#61
nilseling
closed
2 years ago
1
no session JSON files available.
#60
rachel662
closed
3 years ago
1
Truncates image range to 0-1 for mean image in 1_prepare_ilastik
#59
votti
closed
3 years ago
5
Update 3_measure_mask_basic.cppipe
#58
PierreBSC
closed
2 years ago
8
Images of type float must be between -1 and 1
#57
StarXian
closed
2 years ago
3
Computation of cell morphological features
#56
PierreBSC
closed
2 years ago
7
Ilastik error 'failed to generate export files'
#55
rachel662
closed
2 years ago
6
Dimesion mismatch between 'masks' & 'image'-tiffs after 2_segment_ilastik
#54
maxgrigori
closed
3 years ago
7
Updates the example pipeline outline to CP4 and imctools v2
#53
votti
closed
3 years ago
0
'No objects to concatenate' error when generating a csv with all the acquisition metadata
#52
maxgrigori
closed
3 years ago
14
Add output folder to save filtered and compensated tiff files
#51
nilseling
closed
2 years ago
1
Issue Generating the analysis stacks
#50
aleixriusr
closed
3 years ago
3
Pipeline not compatible with CellProfiler V4
#49
jobha
closed
3 years ago
4
How to generate .txt files form acquisition of .mcd files?
#48
KaWingLee9
closed
3 years ago
2
How
#47
KaWingLee9
closed
3 years ago
0
Error loading zipped mcd/txt file
#46
Bunmi0616
closed
2 years ago
8
Error in generating ome.tiff from mcd
#45
hfl112
closed
3 years ago
3
Memory issue in CellProfiler when running Measure_mask pipeline
#44
cjauset
closed
3 years ago
1
Problem Generating Analysis Stack Tiffs
#43
cassandraman
closed
3 years ago
9
Error converting mcd containing folders into imc zip folders
#42
aagamboa
closed
3 years ago
2
How to adapt the pipeline for 'tissue level' maks
#41
votti
closed
3 years ago
10
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