cellpose

Cell segmentation tool

A software framework for cell segmentation in microscopy images with human-in-the-loop capabilities and image restoration

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

GitHub

1k stars
29 watching
400 forks
Language: Jupyter Notebook
last commit: 22 days ago
Linked from 1 awesome list

cell-biologycell-segmentationsegmentation

Backlinks from these awesome lists:

Related projects:

Repository Description Stars
computational-cell-analytics/micro-sam A tool for interactive microscopy image segmentation and tracking. 365
cellprofiler/cellprofiler-analyst A tool for exploring and analyzing large biological image sets to identify complex phenotypes 146
dcjones/proseg An open-source software package for probabilistic cell segmentation in spatial transcriptomics 45
vanvalenlab/cellsam A Python library providing inference code for a foundation model of cell segmentation using PyTorch. 53
zjufanlab/sccatch Automated tool for annotating cell types from single-cell RNA sequencing data based on marker genes 218
cytomining/cytominer Software for preprocessing and analyzing large cell profiling datasets 49
zjufanlab/scdeepsort A tool for accurately annotating cell types in single-cell RNA sequencing data using deep learning 99
brainglobe/cellfinder Automated 3D cell detection tool for large images in microscopy and neuroscience research 181
oist/usiigaci Automated cell tracking in phase contrast microscopy images using machine learning and computer vision techniques 193
schmollerlab/cell_acdc A Python framework for analyzing and annotating microscopy data 133
kreshuklab/plant-seg A tool for cell instance aware segmentation in densely packed 3D volumetric images 97
rahi-lab/yeaz-gui An interactive tool for segmenting yeast cells using deep learning-based image analysis 27
jhsmit/colicoords An open-source Python project for analyzing fluorescence microscopy data from rodlike cells. 26
sentinal4d/cellshape Analyzes 3D cell shape features using deep learning for cancer research 21
mahmoodlab/maps A machine learning framework for annotating cell types from spatial proteomics data 48