cellassign

Cell assigner

Automated assignment of cell types in single-cell RNA-seq data based on marker genes and patient/batch effects

Automated, probabilistic assignment of cell types in scRNA-seq data

GitHub

197 stars
13 watching
83 forks
Language: R
last commit: about 2 years ago
Linked from 1 awesome list


Backlinks from these awesome lists:

Related projects:

Repository Description Stars
jcao89757/scina An algorithm for assigning cell types based on prior knowledge and gene expression profiles 61
zjufanlab/sccatch Automated tool for annotating cell types from single-cell RNA sequencing data based on marker genes 219
antoniodefalco/scevan Automated tool for classifying cells in scRNA data and inferring copy number profiles of malignant cells. 94
mathewchamberlain/signacx Classifies cellular phenotype in single-cell RNA sequencing data using neural networks 24
zjufanlab/scdeepsort A tool for accurately annotating cell types in single-cell RNA sequencing data using deep learning 100
kstreet13/bioc2020trajectories Analyzing and comparing single-cell RNA-seq data across multiple conditions to infer cell trajectories and detect differential expression. 25
sccaf/sccaf Automated method for identifying putative cell types from single-cell RNA-seq data using clustering and machine learning 94
immcore/is-cellr A web-based Shiny application for analyzing single-cell RNA sequencing data 23
agitter/single-cell-pseudotime Catalogs algorithms for estimating the position of cells in a developmental trajectory from single-cell gene expression data 412
asmagen/robustsinglecell An R-based software package for analyzing scRNA-seq data to identify robust cell subpopulations and compare population compositions across different tissues and experimental models. 13
qile0317/apackoftheclones Tools for visualizing and analyzing clonal expansion in immune cell populations 14
nasqar/seuratv3wizard An R-based web application for guided single-cell RNA-seq data analysis and clustering 33
imb-computational-genomics-lab/ascend Tools and methods for analyzing single-cell RNA sequencing data, including expression normalization and differential gene expression analysis. 22
drisso/bioc2016singlecell Analyzing single-cell RNA-seq data using R and Bioconductor tools 76
eiriniar/cellcnn A Python-based software framework for analyzing mass/flow cytometry data to identify phenotype-associated cell subsets. 65