IGB Release Documentation
Page tree
Skip to end of metadata
Go to start of metadata

General Function Checklist


Default Data Providers

Select File -> Preferences -> Data Sources tab.

  • Default data providers (e.g., RNA-Seq, ChIP-Seq, DNA-Seq, etc.) appear in the Data Sources table.

  • mac
  • linux
  • windows
  • None of the rows have a red or yellow background.
  • mac
  • linux
  • windows


Click on the (info) icon in the Information column for RNA-Seq.

  • A window opened with fields and values similar to the example below:

  • mac
  • linux
  • windows
  • The data listed in the Value column are specific to the RNA-Seq data source.
  • mac
  • linux
  • windows


Close this information window, then click on the (info) icon for Genome in a Bottle.

  • The data listed in the Value column updated appropriately and are specific to the Genome in a Bottle data source.
  • mac
  • linux
  • windows


Open the A_thaliana_Jun_2009 genome.

  • Several Quickloads are present in the Available Data section (they may be different from those shown below).

  • mac
  • linux
  • windows


Open the H_sapiens_Dec_2013 genome.

  • Several Quickloads are present in the Available Data section (they may be different from those shown below).

  • mac
  • linux
  • windows
  • Important: The Cytobands track is visible

  • mac
  • linux
  • windows


  1. Navigate to chr1:45,691,287-45,691,329
  2. Click Load Sequence. 
  • Individual base pairs (ACGT) are visible and colored consistently along the coordinates track.

  • mac
  • linux
  • windows


Adding/Removing/Editing Data Providers

  1. Select File -> Preferences -> Data Sources tab.
  2. Click Add... 
    1. Name: myQuickload
    2. Type: Quickload
    3. URL: http://www.igbquickload.org/quickload/
  3. Click Submit.
  4. Close Preferences.
  • myQuickload is present in the Available Data section

  • mac
  • linux
  • windows


  1. Close and re-open IGB.
  2. Select File -> Preferences -> Data Sources tab.
  • myQuickload is still present in the Data Sources table.

  • mac
  • linux
  • windows


Select myQuickload and click Edit...

  • The Edit Data Source window opened.

  • mac
  • linux
  • windows


Click Choose local folder.

  • The user's file chooser opens correctly.
  • mac
  • linux
  • windows


Change the Name of myQuickload to myQuickloadv2, then click Save Changes.

  • The name of myQuickload correctly updated to myQuickloadv2 in both the Data Sources table and the Available Data section.
  • mac
  • linux
  • windows


  1. Select myQuickloadv2.
  2. Click Remove...
  • The myQuickloadv2 data source was removed from both the Data Sources table and the Available Data section.
  • mac
  • linux
  • windows


Secured Data Providers

Click Add... and add the following two Quickload sites:

  1. Name: secure1
  2. Type: Quickload
  3. URL: http://igbquickload.org/secureQuickloadTestSites/secureSiteTest
    1. Click Submit. A prompt should appear asking for a username and password:
      1. Username: guest
      2. Password: guest
    2. Make sure Save Password is checked, then click OK.
  1. Name: secure2
  2. Type: Quickload
  3. URL: http://igbquickload.org/secureQuickloadTestSites/secureSiteTest2
    1. Click Submit. A prompt should appear asking for a username and password: 
      1. Username: guest2
      2. Password: guest2
    2. Make sure Save Password is checked, then click OK.


  • The two secured Quickloads are added to the Data Sources table and are not highlighted yellow or red.

  • mac
  • linux
  • windows


Close Preferences and open the A_thaliana_Jun_2009 genome.

  • The two secured Quickloads are listed in the Available Data section. 

  • mac
  • linux
  • windows


  1. Add the TAIR10 mRNA data from the secure1 Quickload.
  2. Add the TDNA insertion lines data from the secure2 Quickload.
  3. Go to Chr1:7,404,452-7,520,146
  4. Click Load Data.
  • Data loaded from both of the secured Quickloads.

  • mac
  • linux
  • windows
  • You were not prompted for a password for either of the secured Quickloads.
  • mac
  • linux
  • windows


Restart IGB and open the A_thaliana_Jun_2009 genome.

  • The two secured Quickloads are still listed in the Available Data section.
  • mac
  • linux
  • windows
  • You were not prompted for your password again for either of the secured Quickloads upon restarting IGB.
  • mac
  • linux
  • windows



  • No labels