Open Bioinformatics Foundation

The Open Bioinformatics Foundation (OBF) is a non-profit, volunteer-run organization that supports #OpenSource #bioinformatics. Our member projects include #BioPerl, #BioJava, #BioRuby and #Biopython. We run an annual meeting, the Bioinformatics Open Source Conference (@BOSC).

Open Bioinformatics FoundationOpenBio@genomic.social
2025-04-15

Reminder that the #BOSC2025 and #ISMB2025 / #ECCB2025 / #ISMBECCB2025 abstract deadline is this Wednesday!
genomic.social/@BOSC/114157337

Open Bioinformatics FoundationOpenBio@genomic.social
2025-04-02

Our website is now also participating in the @rogue_scholar to ensure our blog posts are archived and searchable!

rogue-scholar.org/search?q=&l=

Open Bioinformatics FoundationOpenBio@genomic.social
2025-03-03

We have moved our website open-bio.org/ from a hosted #WordPress instance to #Hugo running on #GitHubPages, with a new look and feel (and light/dark themes) but preserving all the content. Thank you to everyone who helped make this happen!

Open Bioinformatics Foundation boosted:
Bastian Greshake Tzovarasgedankenstuecke@scholar.social
2025-02-03

The latest @OpenBio newsletter is now out, also available here: github.com/OBF/newsletter/blob

There's some updates on #BOSC2025, the maximum funding amount of our event fellowship has been increased, and: We're looking for projects for the upcoming #GSoC!

Open Bioinformatics Foundation boosted:
Bastian Greshake Tzovarasgedankenstuecke@scholar.social
2025-02-03

For the #opensource #openscience #bioinformatics folks: The next @OpenBio newsletter will go out this afternoon (Argentina time).

Last chance to get your community updates in: github.com/OBF/newsletter/pull

Open Bioinformatics FoundationOpenBio@genomic.social
2025-01-28

Our website open-bio.org/ is back online, we think it was a effectively a #DenialOfService attack from a rogue bot site scraping - which pushed the server over the hosting's burst CPU limit threshold.

Open Bioinformatics FoundationOpenBio@genomic.social
2025-01-27

And the website is offline again, another CPU usage spike trigging a precautionary shutdown by the hosting company.

See obf.github.io/ in the interim which already has most of the static content, and all the pages migrated from MediaWiki. The WordPress content is next!

Open Bioinformatics Foundation boosted:
2025-01-15

@OpenBio The next commit/pull request will put the #Biopython git repository’s default branch at over 16,000 commits!

Open Bioinformatics FoundationOpenBio@genomic.social
2025-01-15

#Biopython 1.85 released, supports Python 3.9 through 3.13 and PyPI. biopython.org/

Pre-compiled wheels available on PyPI pypi.org/project/biopython/1.8 with #CondaForge to follow soon anaconda.org/conda-forge/biopy

Open Bioinformatics Foundation boosted:
BOSC (OpenBio's Conference)BOSC@genomic.social
2025-01-10

Greetings! We invite you to join us for #BOSC2025, a vibrant gathering at the forefront of #OpenSource #bioinformatics and #OpenScience!
BOSC 2025 will be held July 21-22 in Liverpool, UK (and online) as part of #ISMB / #ECCB 2025 (#ISMBECCB2024).

We are seeking keynote speaker nominations: open-bio.org/2025/01/09/nomina

Open Bioinformatics FoundationOpenBio@genomic.social
2024-12-18

Our Website is back online - although we're unsure what caused the CPU usage spike which triggered the precautionary shutdown by our hosting company.

Open Bioinformatics FoundationOpenBio@genomic.social
2024-12-16

The OBF website is currently down - our hosting have notified us of the problem. We don't have a estimated time for restoration yet, in the meantime much of the content is on github.com/obf although not as readily explored.

Open Bioinformatics FoundationOpenBio@genomic.social
2024-09-26

Another blog post from one of the OBF travel fellowship awardees:

Zehra Köksal: My unforgettable experience presenting accessible software to 1000 forensic experts open-bio.org/2024/09/26/zehra-

Open Bioinformatics FoundationOpenBio@genomic.social
2024-09-24

OBF Newsletter September 2024 github.com/OBF/newsletter/blob

TL;DR: Watch the #BOSC2024 recordings, save the date for #BOSC2025, share or apply for the upcoming OBF event fellowship application and join the Pydna hackathon!

Thank you @gedankenstuecke as editor

Open Bioinformatics FoundationOpenBio@genomic.social
2024-07-25

The second round of OBF Event Fellowship application is now open! This fellowship provides financial support to attend events promoting open-source bioinformatics software development and open science practices. Apply via forms.gle/TNKBnrJvetXs6G7q6 by August 1, 2024.

OBF Event Fellowship supports participation of members from underrepresented groups at events promoting bioinformatics and open source practices.
Open Bioinformatics FoundationOpenBio@genomic.social
2024-02-23

Call for the first round of OBF Event Fellowship 2024 & overview of the last round of 2023 open-bio.org/2024/02/23/event-

This scheme aims to increase #diversity at events that promote #OpenSource #bioinformatics and/or #OpenScience. We invite applications seeking #FinancialSupport to attend relevant scientific events. Includes conferences, workshops, code fests, hackathons, training courses, collaborative sprints, informal meet-ups or other skill-building and networking events.

Open Bioinformatics Foundation boosted:
Bastian Greshake Tzovarasgedankenstuecke@scholar.social
2024-02-23

Last call for the @OpenBio & @BOSC newsletter (planned to be send out early next week)! 📰 🧬 :OpenAccess:

We are always happy to include community news from the intersection of #bioinformatics, #openscience, and #opensource.

So if you have any project updates, upcoming events etc. let me know – or leave a comment/suggested edit directly on GH at github.com/OBF/newsletter/pull

@bioinformatics

Open Bioinformatics Foundation boosted:
Bastian Greshake Tzovarasgedankenstuecke@scholar.social
2024-02-21

For the #opensource #bioinformatics crowd: I'm starting to prepare the next @OpenBio newsletter that tentatively will go out in early March. And as always we're looking to include community-updates too!

If you have any topics fitting the open bioinformatics scope, feel free to reply/DM here, or leave a comment/suggested edit directly on GH at github.com/OBF/newsletter/pull

@bioinformatics

Open Bioinformatics Foundation boosted:
2024-02-09

@cmdcolin @OpenBio @scottcain

High level summary at github.com/OBF/wiki/blob/main/ but look at the history and issue tracker for some of the gory details 😉

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