Uploaded image for project: 'User Support'
  1. User Support
  2. HELP-297

New plug-in for IGB- questions about data selection

          Details

          • Type: New Feature
          • Status: To-Do (View Workflow)
          • Priority: Major
          • Resolution: Unresolved
          • Labels:
            None

            Description

            On Thu, Jun 28, 2018 at 5:11 AM, Adam Zaborowski <Zaborowski@mpimp-golm.mpg.de<Zaborowski@mpimp-golm.mpg.de>> wrote:
            Dear Ann,

            I would like to develop an application/plug-in for IGB. Because of that I have a few questions which I want to ask.

            First, can I select a region/part of my data and get the location, or maybe even values for different lines, of it as an output? For example, I have peaks from ChIP-seq analysis and I want to know exact location/values of those which are selected in IGB.

            Second, can I extract from IGB values for selected/all loaded lines for selected genomic region? For example, I have two tracks for ChIP-seq against two different transcription factors and I want to know what is their average score for selected region e.q. 1kb or 10kb. Can I have also information about which genes (mRNA) are present in this region or values for any other line?

            I appreciate any help you can provide.

            Your sincerely,
            Adam Zaborowski

            Adam Zaborowski
            PhD student
            Bioinformatics AG Walther
            MPI of Molecular Plant Physiology
            Am Muehlenberg 1
            14476 Potsdam

              Attachments

                Issue Links

                relates to

                New Feature - A new feature of the product, which has yet to be developed. IGBF-1355 Make a new IGB "demo" App that shows how Apps can get access to track data

                • Major - Major loss of function.
                • Closed

                  Activity

                  Ascending order - Click to sort in descending order
                  Hide
                  Permalink
                  mason Mason Meyer (Inactive) added a comment -

                  From: Ann Loraine [Ann.Loraine@uncc.edu]
                  Sent: Friday, June 29, 2018 4:31 PM
                  To: Adam Zaborowski; Ivory Blakley; Freese, Nowlan; Kiran Korey; Sneha Ramesh Watharkar
                  Subject: Re: New plug-in for IGB- questions about data selection

                  Hello,

                  It is great to hear from you.

                  I'm forwarding your message to the IGB team. This should definitely be possible, and it reminds me we need to document these aspects of the IGB API in a more accessible and systematic way.

                  We will review the relevant parts of the code and get back to you – probably early next week.

                  Best wishes,

                  Ann

                  Show
                  mason Mason Meyer (Inactive) added a comment - From: Ann Loraine [Ann.Loraine@uncc.edu] Sent: Friday, June 29, 2018 4:31 PM To: Adam Zaborowski; Ivory Blakley; Freese, Nowlan; Kiran Korey; Sneha Ramesh Watharkar Subject: Re: New plug-in for IGB- questions about data selection Hello, It is great to hear from you. I'm forwarding your message to the IGB team. This should definitely be possible, and it reminds me we need to document these aspects of the IGB API in a more accessible and systematic way. We will review the relevant parts of the code and get back to you – probably early next week. Best wishes, Ann
                  Hide
                  Permalink
                  mason Mason Meyer (Inactive) added a comment -

                  From: Adam Zaborowski <Zaborowski@mpimp-golm.mpg.de>
                  Date: Mon, Jul 2, 2018 at 9:32 AM
                  Subject: RE: New plug-in for IGB- questions about data selection
                  To: Ann Loraine <Ann.Loraine@uncc.edu>
                  Cc: Juergen Gremmels <Gremmels@mpimp-golm.mpg.de>

                  Hello Ann,

                  thank you for your response and for your help

                  I'm adding my college who will be also involved in this project.

                  Best wishes,
                  Adam

                  Show
                  mason Mason Meyer (Inactive) added a comment - From: Adam Zaborowski <Zaborowski@mpimp-golm.mpg.de> Date: Mon, Jul 2, 2018 at 9:32 AM Subject: RE: New plug-in for IGB- questions about data selection To: Ann Loraine <Ann.Loraine@uncc.edu> Cc: Juergen Gremmels <Gremmels@mpimp-golm.mpg.de> Hello Ann, thank you for your response and for your help I'm adding my college who will be also involved in this project. Best wishes, Adam

                    People

                    • Assignee:
                      ann.loraine Ann Loraine
                      Reporter:
                      mason Mason Meyer (Inactive)
                    • Votes:
                      0 Vote for this issue
                      Watchers:
                      1 Start watching this issue

                      Dates

                      • Created:
                        Updated: