plant-seg by hci-unihd

A tool for cell instance aware segmentation in densely packed 3D volumetric images

updated at May 12, 2024, 3:57 a.m.

7 +0

86 +1

30 +0

opencv by opencv

Open Source Computer Vision Library

updated at May 12, 2024, 1:21 a.m.

2,654 +0

75,855 +133

55,604 -7

cellpose by MouseLand

a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

updated at May 11, 2024, 10:14 p.m.

30 +0

1,191 +7

347 +1

cloud-volume by seung-lab

Read and write Neuroglancer datasets programmatically.

updated at May 11, 2024, 9 p.m.

28 +0

125 +0

42 +0

Slicer by Slicer

Multi-platform, free open source software for visualization and image computing.

updated at May 11, 2024, 8:05 p.m.

38 +0

1,488 +6

507 +3

Cell_ACDC by SchmollerLab

A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data

updated at May 11, 2024, 6:45 p.m.

5 +0

117 +1

20 +0

EBImage by aoles

Image processing toolbox for R

updated at May 11, 2024, 5:22 p.m.

13 +0

68 +1

28 +0

root_painter by Abe404

RootPainter: Deep Learning Segmentation of Biological Images with Corrective Annotation

updated at May 11, 2024, 4:47 p.m.

5 +0

51 +0

11 +0

napari by napari

napari: a fast, interactive, multi-dimensional image viewer for python

updated at May 11, 2024, 2:39 p.m.

48 +0

2,069 +5

409 +2

CellProfiler by CellProfiler

An open-source application for biological image analysis

updated at May 11, 2024, 11:25 a.m.

44 +0

861 +1

366 +0

FFT by hsueh-lab

Fungal Feature Tracker (FFT): A tool to quantitatively characterize morphology and growth of filamentous fungi

updated at May 11, 2024, 11:23 a.m.

2 +0

13 +1

3 +0

scikit-image by scikit-image

Image processing in Python

updated at May 11, 2024, 10:06 a.m.

186 +0

5,890 +10

2,194 +3

ImageJ by imagej

Public domain software for processing and analyzing scientific images

updated at May 11, 2024, 8:24 a.m.

47 +0

479 +5

209 +2

stardist by stardist

StarDist - Object Detection with Star-convex Shapes

updated at May 11, 2024, 6:20 a.m.

29 +1

815 +5

213 +0

imagepy by Image-Py

Image process framework based on plugin like imagej, it is esay to glue with scipy.ndimage, scikit-image, opencv, simpleitk, mayavi...and any libraries based on numpy

updated at May 11, 2024, 3:47 a.m.

81 +0

1,284 +1

329 +0

OpenMicroscopy by HohlbeinLab

Non-comprehensive list of projects and resources related to open microscopy.

updated at May 10, 2024, 9:31 p.m.

12 +0

120 +0

26 +1

brainrender by brainglobe

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

updated at May 10, 2024, 4:05 p.m.

19 +0

509 +1

74 +0

brainglobe-atlasapi by brainglobe

A lightweight python module to interact with atlases for systems neuroscience

updated at May 10, 2024, 3:37 p.m.

10 +0

112 +0

23 +0

image-quality by ocampor

Image quality is an open source software library for Image Quality Assessment (IQA).

updated at May 10, 2024, 3 p.m.

10 +0

383 +2

82 +0

n2v by juglab

This is the implementation of Noise2Void training.

updated at May 10, 2024, 9:34 a.m.

19 +0

371 +1

106 +1