Clustering scRNAseq by genotypes

An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.

This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data

Single Cell Cluster Evaluation

Cell type pipes for R

a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.

Explore and share your scRNAseq clustering results

scGSVA: Perform GSVA for single cell RNA seq

Differential expression and allelic analysis, nonparametric statistics

R package developed for single-cell RNA-seq analysis. It was designed using the Seurat framework, and offers existing and novel single-cell analytic work flows.

Reliable, scalable, efficient demultiplexing for single-cell RNA sequencing

R package - Analysis of Single Cell Expression, Normalisation and Differential expression (ascend)

Visualize clonal expansion via circle-packing. 'APackOfTheClones' extends 'scRepertoire' to produce a publication-ready visualization of clonal expansion at a single cell resolution, by representing expanded clones as differently sized circles.

Robust single cell clustering and comparison of population compositions across tissues and experimental models via similarity analysis.

Uncertainty-aware quantification of Transposable Elements expression in scRNA-seq

Normalization for single cell RNA-seq data

A data structure for single cell sequencing data analysis in Julia.

R Package for Single Cell RNAseq Synthetic Data Simulation

Hello there! Some code on how to merge >2 Seurat objects and maintain object identity :)

A single-cell RNA sequencing data analysis toolkit in Julia.