Anyway, very useful as a distance between two probability distributions. en.wikipedia.org/wiki/Wassers...

... "Wasserstein metric" in literature, so I had felt awkward in using the other name. He asked if I'd found out that it was actually Kantorovich on Wikipedia. I said yes, about a year ago. He said it was he and his student who made the naming updates to that Wikipedia page, about two years ago. 2/2

And welcome @martinjvickers.bsky.social to Bluesky!

It was really fun and hopeful, describing the potential for a better future with @nickdimonaco.bsky.social (QUB) and Martin Vickers (JIC). Although bioRxiv doesn't accept review paper preprints, here it is on Figshare figshare.com/articles/pre... 6/6

We examine the limitations of genome file formats, demonstrate why incremental improvements are insufficient, and argue that genomics must adopt version control with the same gusto that is applied to generating new sequencing data. 5/6

The informality paradox: FASTA and GFF are simple, flexible and incredibly successful as file formats. But the features that made them successful make them incompatible with the systematic change tracking that modern collaborative genomics desperately needs. 4/6

It doesn't yet exist but we've summarised where we are now and set out our thoughts on what would be great to have. Could we have propagation of sequence updates to annotations? support for conflict resolution? biologically meaningful genome diffs? alternatives in branches? 3/6

You've downloaded a FASTA and a GFF and found that the identifiers don't match? You know there's a new assembly online but it's going to mess up your carefully curated annotations? You're working in an international pangenome consortium and have assemblies and annotations galore? 2/6

The nibbles in there today though were not so healthy.

We’re working on software that tracks changes to genomic DNA sequences, both intentional and the actual results from real-life sequencing. We wrote up a blog post describing how that could work for a bacterial genome: www.genhub.bio/blog/2025/10... (2/5)