Obf

To encourage more student presentations at the Bioinformatics Open Source Conference (BOSC), this year we’re waiving the registration fee for accepted student presenters. When you submit your abstract ( BOSC abstract call open until 4th April), you must tick the student box: Student submissions must have a full-time student as the first named and presenting author, and be mostly written by students. Please note that because BOSC registration is via the ISCB as one of the ISCM SIG meetings, eligible students must contact us before filling in their ISCB registration to ensure the BOSC SIG fee is waived. [Read More]

Are you a university student and interested in spending the summer developing open-source bioinformatics software? (Good! Keep reading.) On Monday, March 10, Google Summer of Code 2014 (GSoC) will begin accepting student applications to work with mentoring organizations like OBF. Here are the steps for you to prepare an application and apply for GSOC 2014 with OBF: Check the OBF ideas page for potential projects you’d like to work on, and identify one or a few that you’re most interested in doing. [Read More]

Call for Abstracts for the 15th Annual Bioinformatics Open Source Conference (BOSC 2014), a Special Interest Group (SIG) of ISMB 2014. Dates: July 11-12, 2014 Location: Boston, MA, USA Web site: /wiki/BOSC_2014 Email: bosc@open-bio.org BOSC announcements mailing list Twitter: @OBF_BOSC and @OBF_News Important Dates: March 24, 2014: Registration opens for ISMB and BOSC April 4, 2014: Deadline for submitting BOSC abstracts May 1, 204: Notification of accepted talk abstracts emailed to authors July 9-10, 2014: BOSC Codefest 2014, Boston July 11-12, 2014: BOSC 2014, Boston July 11-15, 2014: ISMB 2014, Boston The Bioinformatics Open Source Conference (BOSC) covers the wide range of open source bioinformatics software being developed, and encompasses the growing movement of Open Science, with its focus on transparency, reproducibility, and data provenance. [Read More]

Open Bio is officially a mentoring organization for Google Summer of Code 2014! See Google’s official announcement for more details on what this means in general. What’s next? Google’s GSoC timeline lays out what we need to do as a mentoring organization during the coming weeks. Students can apply March 10–21 through the official GSoC 2014 website to work with OBF. Up to that point, we’ll be reaching out to potential students and mentors, and contining to develop potential project ideas. [Read More]

On Friday, OBF applied to be a mentoring organization for Google Summer of Code 2014. The core of our application to Google is our list of project ideas and our team of mentors supporting them. (We also have a separate page for general information about GSoC and OBF’s involvement.) As another way to interact with potential GSoC students, we’ve created a Google Plus page for OBF and a G+ community for OBF’s GSoC activities. [Read More]

Google Summer of Code is on again for 2014, and OBF is once again applying as a mentoring organization. Participating in GSoC as an organization is very competitive, and we will need your help in gathering a good set of ideas and potential mentors. Since OBF is an umbrella organization covering several member projects, most of these GSoC ideas will likely be associated with a specific Bio* community. For our GSoC application, and for the convenience of students, we aggregate each Bio* project’s ideas on the GSoC page of the OBF wiki, but the details of each idea are posted on the specific Bio* project’s own wiki. [Read More]

Update: The deadline for responding has been extended to January 25. The 2014 Google Summer of Code (GSoC) is coming up soon. The published timeline puts the mentoring organization applications from Feb 3 to 14. OBF participated on behalf of our member projects in 2010, 2011, and 2012. Those participations were both important and successful. Through them, our projects gained new contributors, new features, and new community members. The mentors involved from our projects learned as much from the experience as the students, and formed bonds. [Read More]

Thanks to those who participated in the BOSC 2014 Keynote Competition! Our winner is Manuel Corpas, who correctly surmised Philip Bourne: https://twitter.com/manuelcorpas/status/412520369044463616 (In fact, we had already confirmed Philip Bourne as our second keynote speaker before his new job at NIH was announced.) Congratulations, Manuel, on winning free admission to BOSC 2014! Dr. Bourne’s keynote talk will be entitled “Biomedical Research as an Open Digital Enterprise”: The biomedical research lifecycle is fast becoming completely digital and increasingly open to the point that publishing could simply become changing the access control on given research objects comprising ideas, hypotheses, data, software, results, conclusions, reviews, grants and so on. [Read More]

We’re pleased to officially confirm that one of the two keynote speakers for the 15th annual Bioinformatics Open Source Conference ( BOSC 2014) will be C. Titus Brown, as he announced on Twitter recently: Titus Brown (@ctitusbrown): Excited to be a keynote speaker at BOSC 2014! My title: “A History of Bioinformatics (in the year 2039)” - plenty of room for mischief ;) https://twitter.com/ctitusbrown/status/410934403565490176 In recognition of the growing use of Twitter and social media within science as a way of connecting across geographical divides, we’re announcing a Twitter competition to guess who is scheduled to give the second keynote at BOSC 2014 in Boston. [Read More]

Note: I’m reposting here the original announcement from Florent Angly on the BioPerl mail list. Dear all, Some time ago, I announced that I was working on a set of BioPerl modules collectively forming the Bio-Community distribution. These Moose-based modules provide objects to represent communities, metacommunities and their members, and they also provide many methods to interact with them, perform various ecological operations (e.g. rarefaction, taxonomic summary, subsampling), and to read/write them to file in multiple formats. [Read More]