Automated phylogenetic lineage proposal and interactive curation.

Linolium provides an environment for lineage discovery and curation on pathogen phylogenetic trees of virtually any size. It builds on the AutoLin algorithm for distance-based identification of clades and provides a UI for customizing the algorithm and curating results.

Quick Start

docker run -it --memory=8g -v "$PWD":/data -p 3000:3000 ghcr.io/corbett-lab/linolium

Open http://localhost:3000, upload a .pb or .pb.gz file, and run the pipeline.

The app runs on a single port. If 3000 is taken on your machine, remap it — e.g. -p 8080:3000, then open http://localhost:8080.

See the Usage Guide for detailed instructions.