imagej2 by imagej

Open scientific N-dimensional image processing

updated at June 18, 2024, 8:48 p.m.

92 +0

1,123 +3

328 +0

cloud-volume by seung-lab

Read and write Neuroglancer datasets programmatically.

updated at June 18, 2024, 10:41 p.m.

29 +0

126 +0

42 +0

n2v by juglab

This is the implementation of Noise2Void training.

updated at June 19, 2024, 12:10 p.m.

19 +0

382 +1

107 +0

pytorch_connectomics by zudi-lin

PyTorch Connectomics: segmentation toolbox for EM connectomics

updated at June 19, 2024, 2:58 p.m.

6 +0

167 +1

74 +0

PartSeg by 4DNucleome

Tool for segmentation in bioimaging

updated at June 19, 2024, 4:07 p.m.

3 +0

28 +1

8 +1

atomai by pycroscopy

Deep and Machine Learning for Microscopy

updated at June 19, 2024, 9:32 p.m.

11 +0

183 +1

39 +0

CSBDeep by CSBDeep

Image restoration for fluorescence microscopy

updated at June 20, 2024, 3:36 a.m.

21 +0

269 +2

82 +0

plantcv by danforthcenter

Plant phenotyping with image analysis

updated at June 20, 2024, 4:31 a.m.

46 +0

622 +1

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ilastik by ilastik

ilastik-shell, applets, and workflows to string them together.

updated at June 20, 2024, 6:16 a.m.

41 +0

342 +1

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brainglobe-atlasapi by brainglobe

A lightweight python module to interact with atlases for systems neuroscience

updated at June 20, 2024, 7:59 a.m.

10 +0

117 +1

24 +1

ZeroCostDL4Mic by HenriquesLab

ZeroCostDL4Mic: A Google Colab based no-cost toolbox to explore Deep-Learning in Microscopy

updated at June 20, 2024, 9:48 a.m.

35 +0

551 +2

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spotiflow by weigertlab

Accurate and efficient spot detection for microscopy data

updated at June 20, 2024, 4:46 p.m.

3 +0

45 +1

4 +0

pycytominer by cytomining

Python package for processing image-based profiling data

updated at June 20, 2024, 9:07 p.m.

6 +0

70 +1

32 +0

micro-sam by computational-cell-analytics

Segment Anything for Microscopy

updated at June 20, 2024, 9:13 p.m.

7 +0

308 +2

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DECODE by TuragaLab

This is the official implementation of our publication "Deep learning enables fast and dense single-molecule localization with high accuracy" (Nature Methods)

updated at June 20, 2024, 9:39 p.m.

7 +0

86 +1

26 +0

ark-analysis by angelolab

Integrated pipeline for multiplexed image analysis

updated at June 20, 2024, 10:15 p.m.

10 +0

67 +0

24 +0

FAST-Pathology by AICAN-Research

⚡ Open-source software for deep learning-based digital pathology

updated at June 20, 2024, 10:29 p.m.

7 +0

118 +1

23 +0

brainrender by brainglobe

a python based software for visualization of neuroanatomical and morphological data.

updated at June 21, 2024, 9:18 a.m.

17 -1

521 +0

75 +0

brainreg by brainglobe

Automated 3D brain registration with support for multiple species and atlases.

updated at June 21, 2024, 1:32 p.m.

8 +0

113 +2

26 +0

CaImAn by flatironinstitute

Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.

updated at June 21, 2024, 1:51 p.m.

47 +0

610 +1

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