vkedlian's Stars
alexdobin/STAR
RNA-seq aligner
aertslab/pySCENIC
pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.
MarioniLab/miloR
R package implementation of Milo for testing for differential abundance in KNN graphs
r-lib/remotes
Install R packages from GitHub, GitLab, Bitbucket, git, svn repositories, URLs
BayraktarLab/cell2location
Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)
theislab/scgen
Single cell perturbation prediction
scverse/muon
muon is a multimodal omics Python framework
theislab/scCODA
A Bayesian model for compositional single-cell data analysis
Teichlab/bbknn
Batch balanced KNN
aertslab/SCENICprotocol
A scalable SCENIC workflow for single-cell gene regulatory network analysis
theislab/anndata2ri
Convert between AnnData and SingleCellExperiment
const-ae/glmGamPoi
Fit Gamma-Poisson Generalized Linear Models Reliably
czbiohub-sf/tabula-muris-senis
Tabula Muris Senis
SCCAF/sccaf
Single-Cell Clustering Assessment Framework
catavallejos/BASiCS
BASiCS: Bayesian Analysis of Single-Cell Sequencing Data. This is an unstable experimental version. Please see http://bioconductor.org/packages/BASiCS/ for the official release version
Teichlab/Pan_fetal_immune
Collection of scripts for analysis of pan fetal immune atlas
hemberg-lab/MicroExonator
Snakemake pipeline for microexon discovery and quantification
Teichlab/sctk
theislab/ncem_tutorials
emdann/momicsTools
A collection of resources and knowledge for analysis of scATAC+scRNA multi omics data
const-ae/CoefExplainer
Understand How to Interpret the Coefficients of a Categorical Linear Model
theislab/ncem_benchmarks
GKild/scRNAseq_course
EMBL-EBI single cell RNA-seq analysis in R course practicals
iaaka/visutils
set of function for qc and visualization of Visium data
Teichlab/sctkr
A deposit of functions that perform common tasks for single cell analysis