Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads

Interactive R package to quantify, analyse and visualise alternative splicing

Workshop • Analysis of RNA-seq data

Differential expression (DE); gene set Enrichment Analysis (GSEA); single cell RNAseq studies (scRNAseq)

ASAP : Automated Single-cell Analysis Pipeline

Gene-level general linear mixed model

Script to automate differential expression analysis using DESeq2, edgeR or limma-voom

📊 An R package of RNA-seq workflow

single cell and bulk RNASeq analysis scripts

An application for exploring and visualizing differential gene expression data created with DESeq2

Code and figures for the Differential Causal Inference (DCI) algorithm

Curare - A customizable and reproducible analysis pipeline for RNA-Seq experiments

Scripts to run differential expression analysis using DESeq2 package

🍊 View the gene expression response to TNF and IL-17A with vanilla Javascript and HTML.

Python framework for explainable omics analysis

Comparison of gene usage in immune repertoires under different biological conditions

Viper is a Snakemake workflow, aimed at performing the RNA-seq workflow of the paper 'Causes and consequences of a glutamine induced normoxic HIF1 activity for the tumor metabolism', Kappler et al. (2019) in a reproducible and automated manner

RNA-seq alignment and analysis pipeline

Accurate, easy and integrated suit to compare RNA samples with different degradation levels, quantify decay rates per-transcript and correct for degradation-induced artifacts in differential gene/transcript comparisons

Temporal Integrative Genomics Analysis in R