Visualize pointclouds #78
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pgarrison
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Dec 12, 2024
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Can we delete visualize_pointclouds.ipynb and visualize_reconstructions.ipynb?
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fatwir
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Dec 13, 2024
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I was able to generate the figure for the pcna dataset!
Cleanup pc preprocessing
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Move the
visualize_pointcloudsnb to an analysis script. Addresses #3 . This assumes that the images have been preprocessed. Test run for the PCNA dataset:python visualize_pointclouds.py --save_path "./plot_pcs_test" --preprocessed_manifest "./subpackages/image_preprocessing/tmp_output_pcna/processed/manifest.parquet" --dataset_name "pcna" --class_column "cell_stage_fine" --class_label "lateS" --global_path "./subpackages/image_preprocessing/"produces this figure
Test run for the variance dataset:
python visualize_pointclouds.py --save_path "./plot_pcs_test" --preprocessed_manifest "./subpackages/image_preprocessing/tmp_output_variance/processed/manifest.parquet" --dataset_name "other_punctate" --class_column "structure_name" --class_label "CETN2" --global_path "./subpackages/image_preprocessing/"produces this figure