Johannes KösterI am happy to finally announce the release of #Snakemake 8.0! In about half a year, we have modernized large parts of the code base. Most importantly, Snakemake 8.0 introduces a versatile plugin system, redesigned support for external storage, and modernized documentation. Check out the new homepage (https://snakemake.github.io) and the changelog (https://snakemake.readthedocs.io/en/stable/project_info/history.html#breaking-changes)! Many thanks to all contributors! Most importantly @vsoch, but also... (1/n)
Matt Holt 
- 151 Followers
- 78 Following
- 179 Posts
Staff scientist at @PacBio; formerly @hudsonalpha; avid gamer; opinions are my own
The small variant calling benchmarking initiative of NGS-CN is published. Thanks a lot to all the contributors and @dfg_public
for the funding. Here is the paper: https://doi.org/10.12688/f1000research.140344.1
In short: we have implemented a continuous, driven benchmark of small genomic variant calling results: calls on @ZENODO_ORG
, evaluation via #snakemake inside @github
actions, reporting via #datavzrd, contribution via pull requests. (1/x)
for the funding. Here is the paper: https://doi.org/10.12688/f1000research.140344.1
In short: we have implemented a continuous, driven benchmark of small genomic variant calling results: calls on @ZENODO_ORG
, evaluation via #snakemake inside @github
actions, reporting via #datavzrd, contribution via pull requests. (1/x)
F1000Research Article: NCBench: providing an open, reproducible, transparent, adaptable, and continuous benchmark approach for DNA-sequencing-based variant calling.
Read the latest article version by Friederike Hanssen, Gisela Gabernet, Nicholas H. Smith, Christian Mertes, Avirup Guha Neogi, Leon Brandhoff, Anna Ossowski, Janine Altmueller, Kerstin Becker, Andreas Petzold, Marc Sturm, Tyll Stöcker, Sugirthan Sivalingam, Fabian Brand, Axel Schmid, Andreas Buness, Alexander J. Probst, Susanne Motameny, Johannes Köster, at F1000Research.
Ars TechnicaNintendo reportedly showing devs “Switch 2” with upscaled Breath of the Wild
DLSS, ray-tracing support could be in the cards for the new console in 2024.
James Ferguson 
We currently have 3582 members on this instance.
I hope everyone is enjoying their genomic.social instance experience.
I've tried to take a bit of a 'hands-off' approach to its administration, focusing on controlling spam and keeping on top of moderation.
Please let me know if you have any feedback.
Dare ObasanjoI can’t stop thinking about how half the voters in America belong to a party where the front runner is facing 78 felonies and could be convicted before the election while the second place guy is running on a record of how racist (slavery actually taught slaves skills) and transphobic (I’m at war with Disney for being LGBTQ friendly) he is.
We can’t even pretend Republicans are a serious party. No meaningful policy initiatives, just cruelty and hate and selfishness masquerading as virtues.
The landscape of reported VUS in multi-gene panel and genomic testing: Time for a change - Genetics in Medicine https://www.gimjournal.org/article/S1098-3600(23)00960-7/fulltext
Roman/the bioinformatics chatI'm starting a Patreon!
This would help me keep the podcast going and let you find out about the upcoming episodes, contribute your questions/papers/topics, and get a shout-out on the episode pages.
I hope to see you there.
Josh "cortex" MillardReddit decided the thing to do to distract from all the anger at the site and at u/spez for the recent Reddit API horseshit etc. was to do a fun community collaborative drawing thing and, well
In the new #bioinformatics chat episode, we continue talking about #proteins and AlphaFold, this time with Janani Durairaj!
AlphaFold and shape-mers with Janani Durairaj — the bioinformatics chat, a podcast about bioinformatics
This is the second episode in the AlphaFold series, originally recorded on February 14, 2022, with Janani Durairaj, a postdoctoral researcher at the University of Basel. Janani talks about how she used shape-mers and topic modelling to discover classes of proteins assembled by AlphaFold 2 that were absent from the Protein Data Bank (PDB).
MastodonThere’s been a lot of speculation around what Threads will be and what it means for Mastodon. We’ve put together some of the most common questions and our responses based on what was launched today:
https://blog.joinmastodon.org/2023/07/what-to-know-about-threads/
