cell-biology 开源项目推荐（218 个）

MouseLand /cellpose

具有人在循环功能的细胞分割通用算法

vanvalenlab /deepcell-tf

Deep Learning Library for Single Cell Analysis

Boom5426 /Awesome-Virtual-Cell

Awesome-AI-Virtual-Cell：一份精选的论文、数据集、基准测试、演讲及社区资源列表，专注于AI驱动的虚拟细胞研究。

nadeemlab /DeepLIIF

深度学习推断多重免疫荧光用于 IHC 图像定量（https://deepliif.org）[Nature Machine Intelligence'22， CVPR'22， MICCAI'23， Histopathology'23， MICCAI'24]

oist /Usiigaci

Usiigaci: stain-free cell tracking in phase contrast microscopy enabled by supervised machine learning

cantinilab /scPRINT

🏃 The go-to single-cell Foundation Model

Lee-Gihun /MEDIAR

(NeurIPS 2022 CellSeg Challenge - 1st Winner) Open source code for "MEDIAR: Harmony of Data-Centric and Model-Centric for Multi-Modality Microscopy"

DanuserLab /u-segment3D

Generate consensus 3D cells segmentations by combining 2D cell segmentations from any combination of xy, xz, yz views, compatible with outputs of any 2D segmentation method.

deweylab /CellO

CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology

DanuserLab /u-track

Multiple-particle tracking designed to (1) track dense particle fields, (2) close gaps in particle trajectories resulting from detection failure, and (3) capture particle merging and splitting events resulting from occlusion or genuine aggregation and dissociation events

ieee8023 /countception

Count-Ception: Counting by Fully Convolutional Redundant Counting

andreariba /DeepCycle

Cell cycle inference in single-cell RNA-seq

nadeemlab /ImPartial

Interactive deep learning cell segmentation using partial annotations [MICCAI'26]

AllenCellModeling /pytorch_integrated_cell

Integrated Cell project implemented in pytorch

DanuserLab /u-unwrap3D

Transform 3D cell surfaces into different representations including topographic maps, 3D spheres, and 2D images for doing optimized quantification, data analysis and machine learning.

DanuserLab /u-shape3D

Detect morphological motifs, such as blebs, filopodia, and lamellipodia, from 3D images of surfaces, particularly images of cell surfaces.

windmirrorai /nanomirrors

State-of-the-art bio cell models for inference and training. Minimal, readable, and produciton-ready.

Sentinal4D /cellshape

3D shape analysis using deep learning

DanuserLab /u-track3D

Multiple particle tracking in dense 3D particle fields complemented with dynamic regions of interest and trackability inferences for the automated exploration of large volumetric sequences.

praneet1988 /ELeFHAnt

Ensemble Learning for Harmonization and Annotation of Single Cells (ELeFHAnt) provides an easy to use R package for users to annotate clusters of single cells, harmonize labels across single cell datasets to generate a unified atlas and infer relationship among celltypes between two datasets. It uses an ensemble of three machine learning classif…