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A major shortcoming of the current approach is forking `profiling-recipe` means that you are limited to one fork (for a given GitHub account). Consider this scenario:
1. I am `user-A` and I create …
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In cytomining/pycytominer#78 I am working towards integrating DeepProfiler processing into pycytominer. Currently and by default, DeepProfiler outputs [`.npz`](https://numpy.org/doc/stable/reference/g…
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Related to:
https://github.com/cytomining/DeepProfiler/issues/264
I am not sure if this is an issue stemming from CellProfiler output?
But why do we not sort the location files in the same way…
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`ImageNumber` is guaranteed to be unique only *within* an `Image.csv` but not across all `Image.csv` files in a dataset.
Does `pycytominer-transform` handle this correctly?
In [`cytominer-data…
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> Determine the best settings for Parsl configuration with CytoTable (and make subsequent changes within documentation or possibly implement automated configuration). This touches on aspects of #25 bu…
d33bs updated
5 months ago
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The test coverage of `cyto_utils.cell_locations` can be increased to 100% if we figure out how to use `moto`. More here: https://github.com/cytomining/pycytominer/pull/257#issuecomment-1446184844
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https://github.com/cytomining/pycytominer/blob/9a55470be3de1b2bf54ebf78c892e2929bc4203f/pycytominer/operations/transform.py#L80
There is some evidence that `eigh` implementation could be less stabl…
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Discussed in https://github.com/cytomining/pycytominer/issues/195#issuecomment-1217265110
The project could benefit from templating or standard description of issue reports (for example, machine/en…
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Erin's suggestion in https://github.com/broadinstitute/cellpainting-gallery/issues/80#issuecomment-1986375614 was to move away from JUMP since it is the most likely to change in the futu…
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@jccaicedo can you clarify the metric you are now using for evaluating representations, and how you are reporting it?
IIUC you were previously using this
https://github.com/broadinstitute/DeepProf…