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awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

bmac_oa_nonoa

This repository will host all the codes used to analyze the transcriptomics data from the bmac OA-nonOA publication

cost-covid19-severity-prediction-tool

Covid-19 Severity Prediction tool based on NK cell Single Cell RNA expression data

cytofin

Cytofin-an R package for CyTOF data integration

datasciencecoursera

Coursera data science

datasharing

The Leek group guide to data sharing

dorothea

R package to access DoRothEA's regulons

escape

Easy single cell analysis platform for enrichment

genomeassembly

hemberg-scrna-seq-course

kent

UCSC Genome Browser source tree. Stable branch: "beta".

merge_large_scrna

A simple way to merge and integrate more than 200 seurat objects with metadata using RPCA integration method

multiome

scATAC and scRNA data analysis pipeline generalized using ArchR

multiref_cellranger_h1n1

This is a repository outlining how to make multi-gene/multi-genome reference for human GRCh38 and influenza H1N1

muscat

Multi-sample multi-group scRNA-seq analysis tools

nguyen_pervolarakis_nat_comm_2018

Supplementary software for "Profiling human breast epithelial cells using single cell RNA sequencing identifies cell diversity"

pathway_heatmap

To create complexheatmaps publication ready with scRNAseq gene expression GSEA

progeny

R package for Pathway RespOnsive GENe activity inference

programmingassignment2

Repository for Programming Assignment 2 for R Programming on Coursera

rainbow-song

a song about rainbows

scrna-seq-snv

Supplementary Data and Files for PM Schnepp et al. paper

scrna-seq_online

scrna.seq.course

Analysis of single cell RNA-seq data course

scrnaseq-analysis-notes

scRNAseq analysis notes from Ming Tang

scrnaseq_analysis_vignette

Tutorial for scRNA-seq data analysis beginners using R

seurat

R toolkit for single cell genomics

seurat-to-rna-velocity

A guide to using a Seurat object in conjunction with RNA Velocity

shiny

Easy interactive web applications with R

shinycell

Shiny Interactive Web Apps for Single-Cell Data

speckle

R package for analysing single cell data