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Add experiments for different minibatch normalizations #264

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Add experiments for different minibatch normalizations #264

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Commits on May 16, 2024

  1. Add experiments for different minibatch normalizations

    @anwai98
    anwai98 committed May 16, 2024
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  2. Update patch shapes

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    anwai98 committed May 16, 2024
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  3. Add script to submit all batch jobs

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    anwai98 committed May 16, 2024
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Commits on May 17, 2024

  1. Add inference scripts

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    anwai98 committed May 17, 2024
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  2. Add livecell results

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    anwai98 committed May 17, 2024
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  3. Add napari visualization

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    anwai98 committed May 17, 2024
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  4. Merge branch 'verify-norm' of https://github.com/anwai98/torch-em int… 

    …o verify-norm
    @anwai98
    anwai98 committed May 17, 2024
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  5. Minor fix to boundary evaluation

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    anwai98 committed May 17, 2024
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  6. Add boundaries result

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    anwai98 committed May 17, 2024
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  7. Add mouse embryo training

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    anwai98 committed May 17, 2024
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Commits on May 21, 2024

  1. Add inference for all other datasets

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    anwai98 committed May 21, 2024
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  2. Merge branch 'main' into verify-norm

    @anwai98
    anwai98 committed May 21, 2024
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  3. Add visualization scripts

    @anwai98
    anwai98 committed May 21, 2024
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  4. Split up inference-eval schemes

    @anwai98
    anwai98 committed May 21, 2024
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  5. Update prediction saving mode

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    anwai98 committed May 21, 2024
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Commits on May 22, 2024

  1. Update paths

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    anwai98 committed May 22, 2024
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  2. Compress predictions

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    anwai98 committed May 22, 2024
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Commits on Jun 11, 2024

  1. Merge branch 'main' into verify-norm

    @anwai98
    anwai98 committed Jun 11, 2024
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Commits on Jun 12, 2024

  1. Add all remaining results

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    anwai98 committed Jun 12, 2024
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  2. Add new analysis scripts

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    anwai98 committed Jun 12, 2024
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  3. Comment out visualization scripts

    @anwai98
    anwai98 committed Jun 12, 2024
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Commits on Jun 14, 2024

  1. Update normalization for inference

    @anwai98
    anwai98 committed Jun 14, 2024
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  2. Add new results

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    anwai98 committed Jun 14, 2024
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Commits on Jun 17, 2024

  1. Merge branch 'main' into verify-norm

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    anwai98 committed Jun 17, 2024
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Commits on Jun 19, 2024

  1. Add labels to visible layers

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    anwai98 committed Jun 19, 2024
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Commits on Jul 16, 2024

  1. Merge branch 'main' into verify-norm

    @anwai98
    anwai98 committed Jul 16, 2024
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Commits on Sep 16, 2024

  1. Merge branch 'main' into verify-norm

    @anwai98
    anwai98 committed Sep 16, 2024
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  2. Replace mouse embryo with gonuclear

    @anwai98
    anwai98 committed Sep 16, 2024
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  3. Update GoNuclear dataset for returning different target types

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    anwai98 committed Sep 16, 2024
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  4. Merge branch 'main' into verify-norm

    @anwai98
    anwai98 committed Sep 16, 2024
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  5. Refactor loader kwargs

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    anwai98 committed Sep 16, 2024
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Commits on Sep 17, 2024

  1. Update patch shapes

    @anwai98
    anwai98 committed Sep 17, 2024
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  2. Change rescaling at inference

    @anwai98
    anwai98 committed Sep 17, 2024
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  3. Increase compression opts

    @anwai98
    anwai98 committed Sep 17, 2024
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  4. Remove old evaluation scripts

    @anwai98
    anwai98 committed Sep 17, 2024
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  5. Minor refactor to visual analysis scripts

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    anwai98 committed Sep 17, 2024
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Commits on Sep 18, 2024

  1. Explore noise augmentation parameters for livecell

    @anwai98
    anwai98 committed Sep 18, 2024
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  2. Make per dataset script submission flexible

    @anwai98
    anwai98 committed Sep 18, 2024
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  3. Add more results

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    anwai98 committed Sep 18, 2024
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  4. Merge branch 'verify-norm' of https://github.com/anwai98/torch-em int… 

    …o verify-norm
    @anwai98
    anwai98 committed Sep 18, 2024
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  5. Uncomment storing files to segmentation

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    anwai98 committed Sep 18, 2024
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  6. Replace volume-level watershed with elf seeded watershed:

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    anwai98 committed Sep 18, 2024
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Commits on Sep 19, 2024

  1. Show instance labels per experiment

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    anwai98 committed Sep 19, 2024
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  2. Add scripts to extract patch-wise max intensity and skip empty patches

    @anwai98
    anwai98 committed Sep 19, 2024
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  3. Update function to skip empty blocks

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    anwai98 committed Sep 19, 2024
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  4. Change intensity threshold for filtering empty slices

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    anwai98 committed Sep 19, 2024
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  5. Update storing data to h5 files

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    anwai98 committed Sep 19, 2024
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  6. Merge branch 'main' into verify-norm

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    anwai98 committed Sep 19, 2024
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  7. Add multicut for plantseg boundary segmentations

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    anwai98 committed Sep 19, 2024
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Commits on Sep 20, 2024

  1. Add plantseg instance segmentation results

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    anwai98 committed Sep 20, 2024
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  2. Filter out older results

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    anwai98 committed Sep 20, 2024
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  3. Refactor visualization scripts for plantseg

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    anwai98 committed Sep 20, 2024
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Commits on Sep 23, 2024

  1. Merge branch 'main' into verify-norm

    @anwai98
    anwai98 committed Sep 23, 2024
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  2. Refactor augmentations

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    anwai98 committed Sep 23, 2024
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  3. Move multicut segmentation to torch_em module

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    anwai98 committed Sep 23, 2024
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  4. Merge remote-tracking branch 'anwai/verify-norm' into verify-norm

    @anwai98
    anwai98 committed Sep 23, 2024
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  5. Refactor analysis script to adapt with plantseg

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    anwai98 committed Sep 23, 2024
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  6. Add find boundaries to plantseg labels

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    anwai98 committed Sep 23, 2024
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  7. Add plantseg quantitative results

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    anwai98 committed Sep 23, 2024
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Commits on Oct 1, 2024

  1. Merge branch 'main' into verify-norm

    @anwai98
    anwai98 committed Oct 1, 2024
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  2. Make eval-train mode in inference modular for experiments

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    anwai98 committed Oct 1, 2024
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Commits on Oct 7, 2024

  1. Merge branch 'main' into verify-norm

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    anwai98 committed Oct 7, 2024
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