Automated cell type classification

Accurate and robust imputation of scRNA-seq data

A docker image for single-cell analysis

scPred package for cell type prediction from scRNA-seq data

Coarse-graining of large single-cell RNA-seq data into metacells

Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).

A tool for removing doublets from single-cell RNA-seq data

R Package for Single-Cell Dataset Processing and Visualization

scDataviz: single cell dataviz and downstream analyses

R package for analysing single cell data

Capybara: A computational tool to measure cell identity and fate transitions

Explore and share your scRNAseq clustering results

A R package for integrated scRNA-seq data analysis using the RPCI algorithm

Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data

R package for robust clustering of single cell RNA sequencing data

Create QC and summary reports for Alevin output

Comparison of dimensionality reduction methods

This repository contains HCA Benchmarking codes

Docker container for genomics analyses in R.

A single-cell RNA-seq pipeline

Alignability testing and integration of single-cell data

A clusterability measure for scRNA-seq data.

Imputing dropout events in single-cell RNA-sequencing data

A pipeline for droplet-based single-cell RNA-seq and spot-based spatial transcriptomics data secondary analysis implemented in the drake Make-like pipeline toolkit for the R language.