Get OrthoFinder here Read the preprint here. Millions of species here we come! (10/10).

OrthoFinder is not only fast and accurate, it's easy to use. Just provide the complete set of amino acid sequences for your species. If you prefer a specific tree or alignment tool, you can customise. We also output gene duplications and comparative genomics stats (9/10).

What else is new?. We now use gene tree–species tree reconciliation to refine orthogroups. This catches cases where distinct orthogroups were mistakenly fused (8/10)

What about ortholog accuracy?. We tested using the gold standard Quest for Orthologs benchmarking service. OrthoFinder scored highly across the board (7/10)

But is it still accurate?. We benchmarked orthogroups using the OrthoBench dataset. OrthoFinder came out on top (6/10)

So is it scalable?. We benchmarked OrthoFinder against other widely used orthology tools. OrthoFinder is the only method able to analyse >1000 species within our time cutoff (5/10)

Our trick: run OrthoFinder on a small subset of species first. Next, we sample representative sequences from each orthogroup to build profiles. Genes from new species are then matched to these profiles to assign them to orthogroups. This massively improves scalability (4/10).

Most tools rely on all-versus-all comparisons between species . This becomes painfully slow as datasets grow . We needed a better way (3/10).

Millions of species are being sequenced. That’s a huge opportunity, but also a major challenge . How can we ramp up scalability without compromising accuracy?. That’s exactly what we set out to solve in this update (2/10).

OrthoFinder just dropped a major update. It’s faster, more accurate, and ready for thousands of genomes. Let’s break it down (1/10).

RT @lauriebelch: New paper from my PostDoc. Signatues of kin selection in a natural population of Bacillus subtilis. .

RT @StuWest8: Join us! 3 year post-doc, comparative studies of social evolution, especially in social insects @Gijsbertwerner @AshleighGrif….