satijalab / sctransform
R package for modeling single cell UMI expression data using regularized negative binomial regression
☆221Updated 3 months ago
Alternatives and similar repositories for sctransform:
Users that are interested in sctransform are comparing it to the libraries listed below
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆266Updated 2 years ago
- R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.☆247Updated this week
- ☆228Updated 8 months ago
- Clone of the Bioconductor repository for the SingleR package.☆185Updated last month
- A toolkit for single-cell immune profiling☆328Updated this week
- Multi-sample multi-group scRNA-seq analysis tools☆182Updated last month
- Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data☆226Updated last year
- R package implementation of Milo for testing for differential abundance in KNN graphs☆361Updated 4 months ago
- ☆162Updated 6 months ago
- Interactively analyze single cell genomic data☆182Updated last month
- Methods for detecting doublets in single-cell sequencing data☆184Updated this week
- A guide to using a Seurat object in conjunction with RNA Velocity☆137Updated 3 years ago
- Gene set variation analysis☆213Updated this week
- SingleR: Single-cell RNA-seq cell types Recognition (legacy version)☆289Updated 4 years ago
- Generate high quality, publication ready visualizations for single cell transcriptomics data.☆178Updated last month
- R package for integrating and analyzing multiple single-cell datasets☆408Updated 2 months ago
- RNA velocity estimation in R☆186Updated last year
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆314Updated 8 months ago
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆161Updated last year
- A tool for detecting somatic variants in single cell data☆193Updated 6 months ago
- Easy single cell analysis platform for enrichment☆165Updated this week
- Interpretation of cell states using reference single-cell maps☆269Updated 3 weeks ago
- my notes for scATACseq analysis☆122Updated 11 months ago
- Functions for identifying and characterizing continuous developmental trajectories in single-cell data.☆286Updated 11 months ago
- TRAjectory-based Differential Expression analysis for SEQuencing data☆251Updated last month
- This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data☆121Updated 2 years ago
- Fast Wilcoxon and auROC☆176Updated 4 months ago
- Clustering scRNAseq by genotypes☆175Updated 4 months ago
- ☆257Updated 4 months ago
- Analysis Pipeline for Single Cell ATAC-seq☆314Updated last year