A big shoutout to my amazing co-authors @rrwick.bsky.social @gbouras13.bsky.social @susiegriggo.bsky.social @npbhavya.bsky.social and @linsalrob.bsky.social. (6/n)

agtools is open-source and ready to drop into your own pipelines — feedback, issues, and contributions very welcome.

Github: github.com/Vini2/agtools

All you need to know about agtools can be found in the online documentation with lots of examples at agtools.readthedocs.io (5/n)

agtools exposes a Python package interface to load, query and analyse assembly graphs from popular genome and metagenome assemblers. Now you don't have to write custom code to load assembly graphs into your analyses. (4/n)

agtools provides a command-line interface for tasks such as assembly graph format conversion, segment filtering, segment renaming, graph concatenation and component extraction. (3/n)

Assembly graphs power assemblers and have become increasingly important in downstream applications like metagenomic binning, plasmid & viral resolution, and haplotype phasing — but tools providing programmatic access to assembly graphs are scarce. agtools gives you a CLI + Python API for this. (2/n)

I also put together an extra ColabFold formatted database of nearly 130M phage proteins that can be used to make better viral protein structure predictions github.com/gbouras13/co...