Giulio Ermanno Pibiri

Congratulations guys!! 👏

Surprising that they did not cite our work on repetition aware compression :) well, it’s rather new so probably not known enough yet

Really? I did not even know it existed :D

Nice! I'm glad to answer any questions/curiosities you guys might have. And, of course, we are open to collaboration.

Deadline for registration is Jan 31. Don’t miss it! See you all in beautiful Venice 😉

This preprint significantly improves the original design of SSHash to accelerate query and construction time. Looking back at one’s own work is very important and sometimes surprising ☺️

Very excited about this latest work led by @jermp.bsky.social! Since it's initial release, SSHash has served as the basis for several other tools (Fulgor, piscem, etc.). It was already very fast. It is now *substantially* faster!

www.biorxiv.org/content/10.6...

I guess it's still KMC3.

DSB 2026 is organized by the RAVEN (Research on Algorithms VENice) research group at Ca' Foscari University of Venice, raven-laboratory.github.io.

Looking forward to seeing you in Venice!

DSB 2026 - Registration

We are less than 1 month away from abstract submission!

**REGISTRATION** HERE: forms.gle/V9yrUXYvAsTP...
Registrations will be open until January 31st, 2026.

**ABSTRACT SUBMISSION** HERE: forms.gle/baHkDCZW1Lvx...
Submissions of abstracts for an oral presentation are open until January
2nd, 2026.

DSB Workshop Data Structures in Bioinformatics

The workshop "Data Structures in Bioinformatics" is an annual scientific meeting at the crossroads of CS and biology. It is a unique forum to discuss compact data structures and algorithms in the
context of data processing for the life sciences. More details on DSB at dsb-meeting.github.io

The 12th edition of the 2-days workshop “Data Structures in Bioinformatics” (DSB) will take place in Venice (Italy) on February 18-19th, 2026: dsb-meeting.github.io/DSB2026/

Fantastic news Ragnar! Can't think of any better group for you :)

Congratulations to @brinda.eu and Francesca for this impressive work!! We will surely give you a hand in integrating the latest Fulgor version, which is considerably faster thanks to @ale-campa.bsky.social.

Windows?

Congratulations Zamin!!

Beautiful! Let’s see what he has to say then…

Ahah yes! Unforgettable!

He replied to Rob on ycombinator 😂 insane… he still does not get it.

Yeah… sad.

Question about a needed mapping table, wrong sizes. · Issue #80 · jermp/pthash Since the lookup function creates a return value which is not the original index of the key, but instead into a sorted table, we need this sorted table also to get the index into the original keys....

There we go! github.com/jermp/pthash... 😂

Great work and congrats to all authors! 🥳 Can't wait to read the preprint. Just for reference: a Fulgor index ⚡ on the same HPRC collection takes 8.26 GB (not in its most succinct representation). Fulgor, however, can be regarded as a "lossy" method here since it is based on kmers.

Hi bioinformatics, genomics and CS friends! Please help me spread the word. I'm hiring a postdoc! Come work on cutting edge method development in algorithmic genomics with me and my group at @umdscience.bsky.social! 🖥️🧬

Wow! You should definitely consider applying. Rob is an amazing scientist and professor, and a leader in the field.

Ahah crazy!

Cool! Didn’t know :)

what conf are you attending?

Very strange that ArXiv did not accept this review paper. I also recently (some months ago) uploaded a survey on ArXiv and the process went smooth. I suspect there must be other reasons for their decision…

If I remember correctly, this idea was already used in Cortex or McCortex indices by Z. Iqbal et al.

Very interesting opportunity!