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MetaGEAR

News & releases

A running log of platform-level updates. Component-specific release notes live alongside each repository’s CHANGELOG.md.

2026-09-01 — MetaGEAR Pipeline 26.09

A major release, and the first under date-based versioning: the pipeline and MetaGEAR Tools now share one YY.MM number and are released together.

Five new workflows. virus (viral and plasmid detection, clustering, annotation, host prediction), classification (per-contig classification and bacterial binning), mag (cohort MAG catalog with GTDB-Tk taxonomy), msp (MetaSpecies Pangenomes from co-abundance) and structures (structural-homology annotation via PHOLD). See the pipeline page and the reference pages.

Presets. profiles, genomes and microbiome run several workflows in order in one workspace, each reusing what the ones before it produced.

Breaking changes. gene_analysis is now genes and builds its catalog with MMseqs2 rather than CD-HIT, so gene and protein representatives differ from 1.x. The results tree is reorganised by artifact. Nextflow ≥ 25.10.4 is required.

The 1.x line stays available. It is archived, read-only, at schirmer-lab/metagear-pipeline-legacy, with its releases intact — install a pinned 1.x from there if you need to reproduce earlier work. New installs get 26.09 or later.

Releases are archived on Zenodo with a DOI: 10.5281/zenodo.22233494.

2026-05-11 — Platform site relaunch

The platform site has been rebuilt from the ground up as the umbrella for MetaGEAR’s three components — MetaGEAR Pipeline, MetaGEAR Tools (CLI), and MetaGEAR Explorer — replacing the previous CLI-focused documentation site. Component-level technical references now live next to their code in each component repository.

Earlier

Open-source component release notes:

Explorer is a hosted service; updates are announced here as platform news.