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**Describe the bug**
When we upload the qptiff file in CellProfiler, the image is not being recognized. Though this is one of the file formats supported by Bio-formats, it is giving error in the CP4…
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old workflows that were added before the “workflow type” field was added for each workflow step (before March 2019) need to be curated to update the workflow type. e.g. all the workflow steps in http…
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https://travis-ci.org/CellProfiler/centrosome/jobs/435518729#L2494
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The CellProfiler pipeline used in steinbock does not match the current pipeline in the ImcSegmentationPipeline.
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Hi pipeline creator,
I am new to IMC data analysis so please bear my ignorance. My query related to this- https://bodenmillergroup.github.io/ImcSegmentationPipeline/ilastik.html
While trying to im…
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Currently, the feature that creates a CellProfiler .csv from one or more gates creates a table with Image_Metadata_Plate and Image_Metadata_Well columns, but it ignores the Image_Metadata_Site column.…
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For both CP and DP, the corrected images are saved as different bit depth than the original image during the IC step. I am not 100% sure why in the PyBaSiC method we rescaled and converted to 8-bit (w…
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This makes the tools much more flexible and allows integration with KNIME and CellProfiler. It would also be worthwhile to integrate with bioformats
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I installed v3.1.9 using the instructions here: https://github.com/CellProfiler/CellProfiler/wiki/Conda-Installation exactly as written, except changing the branch from master to v3.1.9
It runs thr…
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Hi @apahl , in a JUMP cell painting meeting someone pointed to this file in this repo here (https://github.com/mpimp-comas/2021_grigalunas_burhop_zinken/blob/master/cpa.py). In it, I noticed that the…