scDeepSort

Cell type annotation tool

A tool for accurately annotating cell types in single-cell RNA sequencing data using deep learning

Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network

GitHub

99 stars
6 watching
18 forks
Language: Python
last commit: over 1 year ago
Linked from 1 awesome list

annotationcell-type-classificationdeep-learninggnngraph-neural-networkreference-freescrna-seqsingle-celltranscriptomics

Backlinks from these awesome lists:

Related projects:

Repository Description Stars
zjufanlab/sccatch Automated tool for annotating cell types from single-cell RNA sequencing data based on marker genes 218
zjufanlab/spatalk An R package that infers cell-cell communication and ligand-receptor-target networks from spatially resolved transcriptomic data 62
sccaf/sccaf Automated method for identifying putative cell types from single-cell RNA-seq data using clustering and machine learning 93
sentinal4d/cellshape Analyzes 3D cell shape features using deep learning for cancer research 21
scverse/scvi-tools Probabilistic analysis tools for single-cell omics data 1,251
mathewchamberlain/signacx Classifies cellular phenotype from single-cell RNA sequencing data using neural networks trained on bulk gene expression data. 23
irrationone/cellassign Automated assignment of cell types in single-cell RNA-seq data based on marker genes and patient/batch effects 195
antoniodefalco/scevan Automated tool for classifying cells in scRNA data and inferring copy number profiles of malignant cells. 93
mahmoodlab/maps A machine learning framework for annotating cell types from spatial proteomics data 48
jcao89757/scina An algorithm for assigning cell types based on prior knowledge and gene expression profiles 60
eiriniar/cellcnn A Python-based software framework for analyzing mass/flow cytometry data to identify phenotype-associated cell subsets. 65
kharchenkolab/numbat Analyzes single-cell RNA-seq data to detect allele-specific copy number variations and infer lineage relationships in cancer cells 166
hms-dbmi/scde Provides statistical methods for analyzing single-cell RNA-seq data, focusing on error modeling and differential expression analysis. 173
neurosurgery-brain-tumor-center-diazlab/scell Software tool for analyzing single-cell RNA-seq data from brain tumor samples. 38
dmcable/spacexr Software package for cell type identification and differential expression in spatial transcriptomics 312