cell2location

Cell classifier

An algorithmic framework for resolving cell types in spatial transcriptomics data

Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)

GitHub

327 stars
7 watching
58 forks
Language: Python
last commit: almost 2 years ago

Related projects:

RepositoryDescriptionStars
swainasish/spatialpromptA software tool for analyzing spatial transcriptomics data by separating cell types from location information12
teichlab/cellityA tool for identifying and classifying low-quality cells in single-cell RNA sequencing data using machine learning and statistical methods.37
mahmoodlab/mapsA machine learning framework for annotating cell types from spatial proteomics data49
mathewchamberlain/signacxClassifies cellular phenotype in single-cell RNA sequencing data using neural networks24
zjufanlab/spatalkAn R package that infers cell-cell communication and ligand-receptor-target networks from spatially resolved transcriptomic data61
cahanlab/singlecellnetA package for classifying single-cell RNA-Seq data across species and platforms131
vanvalenlab/cellsamA Python library providing inference code for a foundation model of cell segmentation using PyTorch.58
peterzzq/scdartA deep learning framework designed to integrate multi-modal single cell data from different modalities while preserving cell trajectory structures.10
antoniodefalco/scevanAutomated tool for classifying cells in scRNA data and inferring copy number profiles of malignant cells.94
irrationone/cellassignAutomated assignment of cell types in single-cell RNA-seq data based on marker genes and patient/batch effects197
pachterlab/sircelA tool for identifying and quantifying cell barcodes from single-cell genomics sequencing data.41
ngxbac/kaggle-recursion-cellularAn approach to image classification using a combination of pre-trained models and fine-tuning on two separate datasets40
celldynamics/quimpSoftware for analyzing cell shape changes and dynamic distributions of fluorescent reporters at the cell membrane.7
dpeerlab/palantirAn algorithm for aligning cells along differentiation trajectories from single cell data230
sentinal4d/cellshapeAnalyzes 3D cell shape features using deep learning for cancer research21