scrna-seq

Deep probabilistic analysis of single-cell omics data

Analysis of single cell RNA-seq data course

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

An interactive explorer for single-cell transcriptomics data

Fast, sensitive and accurate integration of single-cell data with Harmony

A list of scRNA-seq analysis tools

Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction and differential geometry analyses

Table of software for the analysis of single-cell RNA-seq data.

Reference mapping for single-cell genomics

Single-cell Transcriptome and Regulome Analysis Pipeline

Single cell perturbation prediction

Simple simulation of single-cell RNA sequencing data

R package for the joint analysis of multiple single-cell RNA-seq datasets

Spatial alignment of single cell transcriptomic data.

STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data

R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets

muon is a multimodal omics Python framework

A tool for semi-automatic cell type annotation

Single cell trajectory detection

Single (i) Cell R package (iCellR) is an interactive R package to work with high-throughput single cell sequencing technologies (i.e scRNA-seq, scVDJ-seq, scATAC-seq, CITE-Seq and Spatial Transcriptomics (ST)).