A week of open source adventures in San Diego
Posted on March 13, 2019
| lindsayrutter
This is a guest blog post from Lindsay Rutter, who was supported by the ongoing Open Bioinformatics Foundation travel fellowship program to attend a National Center for Biotechnology Information (NCBI) hackathon and the Plant and Animal Genome Conference (PAG). The OBF’s Travel Fellowship program continues to help open source bioinformatics software developers with funding to attend conferences or workshops. The current call closes on 15 April 2019. If you are hoping to attend an open source / open science bioinformatics even and travel costs are a barrier, we encourage you to apply for one of our $1000 travel fellowships.
[Read More]Google Summer of Code 2018 wrap-up
Posted on February 22, 2019
| peterc
We have recently applied to Google for the OBF to be part of the Google Summer of Code 2019 programme, again with Kai Blin and Michael Crusoe as joint administrators. Last year, OBF GSoC 2018, was another good year with five students successfully completing their projects:
Synchon Mandal (mentor Moritz Beber) “Adding methods to cobrapy for improved constraint-based metabolic modelling.” ( first blog bost; final report) Sophia Mersmann (mentors Oliver Alka, Julianus Pfeuffer, and Timo Sachsenberg) “Improve Posterior Error Probability Estimation For Peptide Search Engine Results” (blog posts; final report) Edgar Garriga Nogales (mentors Paolo Di Tommaso, Michael R.
[Read More]Travel award recipients for December 2018
Posted on February 13, 2019
| farahzk
We had a great round of OBF travel fellowship candidates in our last round of applications, and after review we extended offers to three deserving applicants: Malvika Sharan, Lindsay Rutter, and Sarker Kamruzzaman. They’ve all accepted the award, and we’re looking forward to hearing about their experiences!
Congratulations to our December 2018 recipients:
Malvika Sharan will be attending BOSC at ISMB 2019 in Basel this July. Abstract submissions have only just opened, but she intends to submit an abstract expanding on the idea “Inclusiveness in Open Science” that she spoke about last year ( slides).
[Read More]Meet our new Travel Fellowship Review Chair: Farah Zaib Khan
Posted on January 9, 2019
| bgreshake
Farah presents CWLProv at GCCBOSC 2018
The next round of our OBF Travel Fellowships just ended on the 15th of December! This round we have introduced a Review Chair coming from the midst of our community that will help us in reviewing the applications. The role will be filled by Farah Zaib Khan, one of our OBF Travel Fellowship alumni. Farah has successfully applied for the Fellowship twice before. Thanks in part to this support, she has become a central community member both of the Bioinformatics Open Source Conference and the Open Bioinformatics Foundation itself.
[Read More]Biopython 1.73 released
Posted on December 18, 2018
| peterc
Dear Biopythoneers,
Biopython 1.73 has been released and is available from our website and PyPI.
This release of Biopython supports Python 2.7, 3.4, 3.5 and 3.6. It has also been tested on PyPy2.7 v6.0.0 and PyPy3.5 v6.0.0.
As in recent releases, more of our code is now explicitly available under either our original " Biopython License Agreement", or the very similar but more commonly used “3-Clause BSD License”. See the LICENSE.
[Read More]Updates are coming!
Posted on November 19, 2018
| yo
About a year ago, the OBF shared plans to get more involved with the open science community, and followed up by recruiting two board members for this purpose. Since then, we’ve tried to keep up momentum and community engagement - during GCCBOSC, we held an OBF Birds of Feather meeting, allowing members of the board to meet with attendees and discuss their needs and interests. As a result of this meeting, we ended up with our new community-designed logo and launched a community newsletter (incidentally, issue 2 of the newsletter is going to be released within the next few days - feel free to suggest a news item).
[Read More]New OBF logo
Posted on November 5, 2018
| nlharris
We have successfully crowd-sourced a new OBF logo! The process started at the OBF Birds of a Feather meeting at GCCBOSC 2018 when the OBF leaders announced that we were seeking a new logo design. Two BoF participants immediately started sketching ideas, as well as a third community member who was not at the BoF but saw our tweet. The designs (which you can see here) were put up for a public vote.
[Read More]OBF membership form fixed
Posted on October 26, 2018
| nlharris
We recently discovered that the application to join the OBF (linked from the OBF membership page) was not working. It broke some time after August 31. We have now replaced it and it is working once again.
If you applied for OBF membership between September 1 and yesterday, please go to the new form (https://goo.gl/x9KYWL) and resubmit your application. We apologize for the inconvenience!
The color of bioinformatics: what is it and how can it be modified?
Posted on August 29, 2018
| tendai
This is a guest blog post from Tendai Mutangadura, who was supported by the ongoing Open Bioinformatics Foundation travel fellowship program to attend the GCCBOSC 2018 meeting in Portland, June 2018. The OBF’s Travel Fellowship program continues to help open source bioinformatics software developers with funding to attend conferences or workshops. This was one of three awards from our April 2018 travel fellowships call. Our August call recently closed, the current call closes 15 December 2018, you might want to apply?
[Read More]City of roses they call it - Portland Oregon (USA)
Posted on August 18, 2018
| farahzk
How should I start describing the fruitful experience in this amazing city… First time ever in Portland, second time attending BOSC… I knew I was signing up for a great time but did not know much about the uncanny beauty of this picturesque city.
First of all, I would like to thank the Open Bioinformatics Foundation (OBF) for providing partial funding to support my travel expenses (though an OBF Travel Fellowship award). I would also like to thank my PhD supervisors Andrew Lonie and Richard O. Sinnott for the remaining expenditure.
[Read More]