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

😎 A curated list of software and resources for exploring and visualizing (browsing) expression data 😎

AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-use precompiled graphical user-interface versions available from our website.

Enjoy your transcriptomic data and analysis responsibly - like sipping a cocktail

pcaExplorer - Interactive exploration of Principal Components of Samples and Genes in RNA-seq data

Estimation of Promoter Activity from RNA-Seq data

GREIN : GEO RNA-seq Experiments Interactive Navigator

Interactive R package to quantify, analyse and visualise alternative splicing

🔬 A multi-method comparative bioinformatics pipeline to detect and study circRNAs from RNA-seq data

Exhaustive capture of biological variation in RNA-seq data through k-mer decomposition.

The code and analyses accompanying the manuscript “MetaMap: An atlas of metatranscriptomic reads in human disease-related RNA-seq data”.

RNAdetector: a free user-friendly and stand-alone software for RNA-Seq data analysis

🌻 View single-cell RNA-seq and mass cytometry data in synovial tissues from patients with RA or OA.

Collection of scripts to map eQTL with RNAseq Data and Genotype by Sequencing

M5NRv2 -- non-redundant protein and rRNA database integration

Epigenomics workflow system for the semi-automated analysis of NGS data

DEWE (Differential Expression Workflow Executor) is an open source application for easily executing Differential Expression analyses in RNA-Seq data.

R package to create heatmaps using signature gene list and transcriptomic data