etycksen/expresso-to-go repository overview

⁠eXpresso to go

A guided, code-free R Shiny application for RNA-seq differential expression and pathway enrichment analysis across multiple contrasts.

⁠Running eXpresso to go

docker run -d -p 3838:3838 -v expresso_kegg:/srv/shiny-server/expresso/cache/kegg etycksen/expresso-to-go:1.0.0

Then open http://localhost:3838⁠. The volume keeps downloaded KEGG pathway maps across restarts.

⁠How to use eXpresso to go

1. Pipeline Setup — choose a species, upload a count matrix, confirm the sample groups, and define contrasts as GroupA-GroupB. Click ☕ Load Coffee!
2. QC & Filtering — review sample clustering and quality weights, adjust the expression and biotype filters, then click Make eXpresso!
3. One tab per contrast — differential expression, KEGG pathways, and GO biological process, each with its own thresholds and exports.
4. Contrast Summary — appears with two or more contrasts; shows which genes are shared or unique across them.

No data of your own? Click Example Mode on the setup page.

⁠Input format

An .xlsx or .csv file with four annotation columns, matched by name in any position:

Plus one count column per sample, each named starting with sample (for example sample.Control-1). Any other columns are carried through and ignored. Download Template on the setup page generates a valid example.

Supported species: human, mouse, rat, fly.