hms-dbmi / scde
R package for analyzing single-cell RNA-seq data
☆173Updated last year
Alternatives and similar repositories for scde:
Users that are interested in scde are comparing it to the libraries listed below
- ☆118Updated 6 years ago
- A SingleCell RNASeq pre-processing snakemake workflow☆147Updated 2 years ago
- Course material in notebook format for learning about single cell bioinformatics methods☆102Updated 8 years ago
- scLVM is a modelling framework for single-cell RNA-seq data that can be used to dissect the observed heterogeneity into different sources…☆105Updated 2 years ago
- An archived version of the scater repository, see https://github.com/davismcc/scater for the active version.☆64Updated 7 years ago
- chromatin Variability Across Regions (of the genome!)☆170Updated 8 months ago
- Batch effects and the effective design of single-cell gene expression studies☆100Updated 5 years ago
- ENCODE Uniform processing pipeline for ChIP-seq☆123Updated 5 years ago
- Bioconductor workshop: Analysis of single-cell RNA-seq data with R and Bioconductor☆78Updated 8 years ago
- Clone of the Bioconductor repository for the SingleR package.☆185Updated last month
- A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.☆101Updated 2 years ago
- Code and annotations for the Tabula Muris single-cell transcriptomic dataset.☆190Updated 2 years ago
- Interactively analyze single cell genomic data☆182Updated this week
- Power analysis is essential to optimize the design of RNA-seq experiments and to assess and compare the power to detect differentially ex…☆106Updated last year
- Pipeline for initial analysis of droplet-based single-cell RNA-seq data☆91Updated 2 years ago
- A tool for the unsupervised clustering of cells from single cell RNA-Seq experiments☆125Updated 3 years ago
- Tools and methods for analysis of single cell assay data in R☆234Updated last year
- Detect doublets in single-cell RNA-seq data☆85Updated 5 years ago
- Cell types enrichment analysis☆194Updated 10 months ago
- Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods☆91Updated 2 years ago
- ☆117Updated last year
- ☆141Updated 6 years ago
- Code for evaluation of differential expression methods in single-cell RNA-seq data☆112Updated 4 years ago
- R data package for pre-compiled somatic mutations from TCGA cohorts and CCLE☆92Updated 5 months ago
- Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data☆103Updated last year
- A guide to using a Seurat object in conjunction with RNA Velocity☆138Updated 3 years ago
- AQUAS TF and histone ChIP-seq pipeline☆108Updated 2 years ago
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆266Updated 2 years ago
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆161Updated last year
- RNA velocity estimation in R☆186Updated last year