Puriney

MrY

Management of References for Yourself

scCancer

A package for automated processing of single cell RNA-seq data in cancer

celseq2

Generate the UMI count matrix from CEL-Seq2 sequencing data

CellChat

R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data

CellFishing.jl

cicero-release

cna_loc2geneid

CNVWorkshop

Workshop for CNV analysis with Bioconductor

copykit

Toolkit for single-cell copy number analysis

cra

Cumulative Recovery Analysis

inferCNV

Inferring CNV from Single-Cell RNA-Seq

keyboard-pcb-guide

Guide on how to design keyboard PCBs with KiCad

lib-vanderbilt-tnbctype

Gene signatures for the TNBC subtypes

MEDALT

Inference of Minimal Event Distance Aneuploidy Lineage Tree based on single cell copy number profile

popscle

A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and auxilary tools

prepare_demuxlet_snp

Prepare the reference SNP profile required by Demuxlet

randomcoloR

An R package for generating attractive and distinctive colors.

scanorama

Panoramic stitching of single cell data

scanpy

Single-Cell Analysis in Python. Scales to >1M cells.

scATAC-pro

A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data

scater

Clone of the Bioconductor repository for the scater package, see https://bioconductor.org/packages/devel/bioc/html/scater.html for the official development version.

schex

scProportionTest

seurat

R toolkit for single cell genomics

seurat-wrappers

Community-provided extensions to Seurat

signac

R toolkit for the analysis of single-cell chromatin data

SpatialCPie

survminer

Survival Analysis and Visualization

velocyto.R

RNA velocity estimation in R

yunyan

Another CV of me.