omicschef/rnaseqchef repository overview

⁠(2026/5/1) update: v1.1.7.

RNAseqChef, an RNA-seq data controller highlighting gene expression features, is a web-based application (https://imeg-ku.shinyapps.io/RNAseqChef/⁠) for automated, systematic, and integrated RNA-seq differential expression analysis. RNAseqChef is designed for wet-bench scientists with little computational programming skill to dissect multiple RNA-seq datasets quickly.

⁠Manual

Manual： https://github.com/Kan-E/RNAseqChef/wiki⁠
Manual (Japanese)：https://kan-e.github.io/RNAseqChef_manual_japanese/⁠

⁠Local installation

⁠Method 1 (Docker is required)

• Download Docker
• Run the following commands once to get the docker image of RNAseqChef
  

docker pull omicschef/rnaseqchef:latest

You may now run RNAseqChef with just one command in the command line:

docker run --rm -p 3838:3838 omicschef/rnaseqchef:latest

Please access http://localhost:3838⁠ in your browser.

⁠Citation

When the user publishes the results from RNAseqChef analysis, please cite our original paper.

• Etoh K. & Nakao M. A web-based integrative transcriptome analysis, RNAseqChef, uncovers cell/tissue type-dependent action of sulforaphane. JBC, 299(6), 104810 (2023). https://doi.org/10.1016/j.jbc.2023.104810⁠