Google Summer of Code proposal for phylogeny work with NESCent
Galaxy folks; Would y'all be interested in writing up a Galaxy proposal for Google's Summer of Code? NESCent is planning to apply for the program this year; they've been a mentoring organization for the last 3 years, sponsoring students to work on phyloinformatics code, and I was involved last year as a mentor. Here is some background from last year's projects: https://www.nescent.org/wg_phyloinformatics/Phyloinformatics_Summer_of_Code_... They are starting now to get together the application for 2010, and one of the first steps in that process is generating proposals that students can apply for. I was thinking of including a proposal for integrating additional phylogenetic tools into Galaxy, and wanted to gauge your interest. Right now this is at the brainstorming level, but the general idea would be to build off of the tools already present for metagenome analysis. This could include anything from writing up XML files to include additional stand alone phylogenetic programs, coding up scripts or workflows to automate common analyses, and integrating visualization tools for trees like the InfoVis toolkit: http://thejit.org/ What do you think? If we get accepted and move forward it would be great to have someone from the Galaxy team to help with both formulating the project plans and mentoring during the summer. It's a great opportunity to have an excellent student working on Galaxy full time during the summer. Brad
Brad: Yes! One of guys on the Galaxy team is Sergei Kosakovsky Pond (the author of HyPhy and datamonkey.org), who will be able to play a leading role here. What is the timeframe? Thanks, a. On Feb 24, 2010, at 8:38 AM, Brad Chapman wrote:
Galaxy folks; Would y'all be interested in writing up a Galaxy proposal for Google's Summer of Code? NESCent is planning to apply for the program this year; they've been a mentoring organization for the last 3 years, sponsoring students to work on phyloinformatics code, and I was involved last year as a mentor. Here is some background from last year's projects:
https://www.nescent.org/wg_phyloinformatics/Phyloinformatics_Summer_of_Code_...
They are starting now to get together the application for 2010, and one of the first steps in that process is generating proposals that students can apply for.
I was thinking of including a proposal for integrating additional phylogenetic tools into Galaxy, and wanted to gauge your interest. Right now this is at the brainstorming level, but the general idea would be to build off of the tools already present for metagenome analysis. This could include anything from writing up XML files to include additional stand alone phylogenetic programs, coding up scripts or workflows to automate common analyses, and integrating visualization tools for trees like the InfoVis toolkit:
What do you think? If we get accepted and move forward it would be great to have someone from the Galaxy team to help with both formulating the project plans and mentoring during the summer. It's a great opportunity to have an excellent student working on Galaxy full time during the summer.
Brad _______________________________________________ galaxy-dev mailing list galaxy-dev@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-dev
Anton Nekrutenko http://nekrut.bx.psu.edu http://usegalaxy.org
Anton and Sergei;
Yes! One of guys on the Galaxy team is Sergei Kosakovsky Pond (the author of HyPhy and datamonkey.org), who will be able to play a leading role here. What is the timeframe?
Awesome. This sounds perfect; Sergei, I could definitely use your help in defining the specifics around what is most interesting to you and useful for Galaxy. In terms of dates, we need to have an initial proposal refined by March 12th. Google then judges the applications; if we get accepted we have until March 26th to refine the proposal. Student applications are from March 29th to April 9th, followed by judging and selection of students. The actual work period is from May 24th to August 16th. Once the 2010 wiki is up and running, I will put together some initial text and then follow up here looking for more specific input. Thanks for getting involved with this, Brad
On Feb 24, 2010, at 8:38 AM, Brad Chapman wrote:
Galaxy folks; Would y'all be interested in writing up a Galaxy proposal for Google's Summer of Code? NESCent is planning to apply for the program this year; they've been a mentoring organization for the last 3 years, sponsoring students to work on phyloinformatics code, and I was involved last year as a mentor. Here is some background from last year's projects:
https://www.nescent.org/wg_phyloinformatics/Phyloinformatics_Summer_of_Code_...
They are starting now to get together the application for 2010, and one of the first steps in that process is generating proposals that students can apply for.
I was thinking of including a proposal for integrating additional phylogenetic tools into Galaxy, and wanted to gauge your interest. Right now this is at the brainstorming level, but the general idea would be to build off of the tools already present for metagenome analysis. This could include anything from writing up XML files to include additional stand alone phylogenetic programs, coding up scripts or workflows to automate common analyses, and integrating visualization tools for trees like the InfoVis toolkit:
What do you think? If we get accepted and move forward it would be great to have someone from the Galaxy team to help with both formulating the project plans and mentoring during the summer. It's a great opportunity to have an excellent student working on Galaxy full time during the summer.
Brad _______________________________________________ galaxy-dev mailing list galaxy-dev@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-dev
Anton Nekrutenko http://nekrut.bx.psu.edu http://usegalaxy.org
I participated in this program in the summer of 2008 and concur that it is a great opportunity to get some quality work done for free :) I would be glad to help with the proposal. It would be nice to have a wiki page of suggested topics for students to make it easier for us to be accepted as an organization. Kanwei On Thu, Feb 25, 2010 at 8:41 AM, Brad Chapman <chapmanb@50mail.com> wrote:
Anton and Sergei;
Yes! One of guys on the Galaxy team is Sergei Kosakovsky Pond (the author of HyPhy and datamonkey.org), who will be able to play a leading role here. What is the timeframe?
Awesome. This sounds perfect; Sergei, I could definitely use your help in defining the specifics around what is most interesting to you and useful for Galaxy.
In terms of dates, we need to have an initial proposal refined by March 12th. Google then judges the applications; if we get accepted we have until March 26th to refine the proposal.
Student applications are from March 29th to April 9th, followed by judging and selection of students. The actual work period is from May 24th to August 16th.
Once the 2010 wiki is up and running, I will put together some initial text and then follow up here looking for more specific input. Thanks for getting involved with this, Brad
On Feb 24, 2010, at 8:38 AM, Brad Chapman wrote:
Galaxy folks; Would y'all be interested in writing up a Galaxy proposal for Google's Summer of Code? NESCent is planning to apply for the program this year; they've been a mentoring organization for the last 3 years, sponsoring students to work on phyloinformatics code, and I was involved last year as a mentor. Here is some background from last year's projects:
https://www.nescent.org/wg_phyloinformatics/Phyloinformatics_Summer_of_Code_...
They are starting now to get together the application for 2010, and one of the first steps in that process is generating proposals that students can apply for.
I was thinking of including a proposal for integrating additional phylogenetic tools into Galaxy, and wanted to gauge your interest. Right now this is at the brainstorming level, but the general idea would be to build off of the tools already present for metagenome analysis. This could include anything from writing up XML files to include additional stand alone phylogenetic programs, coding up scripts or workflows to automate common analyses, and integrating visualization tools for trees like the InfoVis toolkit:
What do you think? If we get accepted and move forward it would be great to have someone from the Galaxy team to help with both formulating the project plans and mentoring during the summer. It's a great opportunity to have an excellent student working on Galaxy full time during the summer.
Brad _______________________________________________ galaxy-dev mailing list galaxy-dev@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-dev
Anton Nekrutenko http://nekrut.bx.psu.edu http://usegalaxy.org
_______________________________________________ galaxy-dev mailing list galaxy-dev@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-dev
participants (3)
-
Anton Nekrutenko -
Brad Chapman -
Kanwei Li