Kaggle: Cell Instance Segmentation

Related tags

Deep Learning deep-learning kaggle image-recognition instance-segmentation cell-biology
Overview

Kaggle: Cell Instance Segmentation

CI complete testing Code formatting codecov pre-commit.ci status

The goal of this challenge is to detect cells in microscope images.

Sample brain visual

with simple view on how many cels have been annotated per image:

Sample brain visual

Experimentation

install this tooling

A simple way how to use this basic functions:

! pip install https://github.com/Borda/kaggle_cell-inst-segm/archive/refs/heads/main.zip

run notebooks in Kaggle

local notebooks

  • TBD

some results

Training progress with EfficientNet3D with training for 10 epochs > over 96% validation accuracy:

Training process

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Comments
  • inplace RLE decoding

    inplace RLE decoding

    Before submitting

    • [x] Was this discussed/approved via a Github issue? (no need for typos and docs improvements)
    • [x] Did you make sure to update the docs?
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    What does this PR do?

    in-place image reshape

    PR review

    Anyone in the community is free to review the PR once the tests have passed. If we didn't discuss your PR in Github issues there's a high chance it will not be merged.

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    Make sure you had fun coding 🙃

    enhancement 
    opened by Borda 1
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Owner
Jirka Borovec
Computer Vision & Machine Learning & Bio-Medical Imaging & DeepLearn
Jirka Borovec
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