Tools and functions for conducting scRNASeq in my pipelines

Automated scRNAseq analysis package

scRNA cluster via Seurat package

R Package for interrogating clonal data

Discovers nested gene co-expressing modules

Ligand-Receptor Analysis for scRNAseq data

Plot_ly-based plotting functions for use with Seurat objects

This repository stores the scigenex R library.

Scripts used in scRNAseq and scCUTnTag data processing and analyses in 2023 Tenney et al Nature Genetics HCFP paper

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

R Package for Single Cell RNAseq Synthetic Data Simulation

Normalization for single cell RNA-seq data

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

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.

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

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.

Differential expression and allelic analysis, nonparametric statistics

scGSVA: Perform GSVA for single cell RNA seq