SBU-BMI / wsinfer

🔥 🚀 Blazingly fast pipeline for patch-based classification in whole slide images
https://wsinfer.readthedocs.io
Apache License 2.0
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make cli for running a single slide (not a directory of slides) #124

Closed kaczmarj closed 1 year ago

kaczmarj commented 1 year ago

this will be used for the qupath integration. it can look like this:

wsinfer runsingle --wsi path/to/slide.svs --roi "{GEOJSON OBJECT}" --model resnet34 --weights TCGA-BRCA-v1 --results resultsdir

related to #118

kaczmarj commented 1 year ago

we no longer have a use for this as qupath inference uses a separate java-based extension.