Dear Galaxy team,
My name is Matthew Iyer and I am a Bioinformatics PhD student at the University of Michigan. I am doing my thesis in Arul Chinnaiyan's cancer research lab and generally work with NGS data. I am interested in incorporating galaxy for displaying customized bar/scatter plots showing gene expression levels for many samples.
I have downloaded and am successfully using a galaxy locally and I really love it. However, all of the graph display/plotting tools create images (PDF) for download. Of course, the option to download the images is important, but is it also possible to display these images in the main window?
This feature would make a crucial difference for me and would create many users of galaxy in our lab.
I am a python programmer myself and would be interested in contributing to this effort rather than developing this in a separate framework. I am sure that it is a simple modification to show an image in the main window. I look forward to working with you and using galaxy!
Best, Matthew
Hello Matthew,
I've opened the following ticket for this bug - thanks very much for reporting it. You can "follow" the ticket in bitbucket if you want.
http://bitbucket.org/galaxy/galaxy-central/issue/247/request-for- showing-output-plots-in-galaxy
On Nov 23, 2009, at 10:45 AM, Matthew Iyer wrote:
Dear Galaxy team,
My name is Matthew Iyer and I am a Bioinformatics PhD student at the University of Michigan. I am doing my thesis in Arul Chinnaiyan's cancer research lab and generally work with NGS data. I am interested in incorporating galaxy for displaying customized bar/scatter plots showing gene expression levels for many samples.
I have downloaded and am successfully using a galaxy locally and I really love it. However, all of the graph display/plotting tools create images (PDF) for download. Of course, the option to download the images is important, but is it also possible to display these images in the main window?
This feature would make a crucial difference for me and would create many users of galaxy in our lab.
I am a python programmer myself and would be interested in contributing to this effort rather than developing this in a separate framework. I am sure that it is a simple modification to show an image in the main window. I look forward to working with you and using galaxy!
Best, Matthew _______________________________________________ galaxy-user mailing list galaxy-user@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-user
Greg Von Kuster Galaxy Development Team greg@bx.psu.edu
Matthew,
What browser are you seeing this behavior on? Clicking the "eye" icon should display PDF datasets in the middle pane, and I just verified that it does on main using Safari. However, how PDFs are displayed is dependent on browser and plugin issues.
-- jt
On Nov 23, 2009, at 10:45 AM, Matthew Iyer wrote:
Dear Galaxy team,
My name is Matthew Iyer and I am a Bioinformatics PhD student at the University of Michigan. I am doing my thesis in Arul Chinnaiyan's cancer research lab and generally work with NGS data. I am interested in incorporating galaxy for displaying customized bar/ scatter plots showing gene expression levels for many samples.
I have downloaded and am successfully using a galaxy locally and I really love it. However, all of the graph display/plotting tools create images (PDF) for download. Of course, the option to download the images is important, but is it also possible to display these images in the main window?
This feature would make a crucial difference for me and would create many users of galaxy in our lab.
I am a python programmer myself and would be interested in contributing to this effort rather than developing this in a separate framework. I am sure that it is a simple modification to show an image in the main window. I look forward to working with you and using galaxy!
Best, Matthew _______________________________________________ galaxy-dev mailing list galaxy-dev@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-dev
galaxy-dev@lists.galaxyproject.org
-
Greg Von Kuster -
James Taylor -
Matthew Iyer