Launching GenomeBrowse

When you launch GenomeBrowse you may encounter a few dialogs before a project opens up or is created. These dialogs are outlined below.

Login and Register Dialog

If you are opening GenomeBrowse for the first time on a machine (or for the first time period) the first dialog you will see on launching GenomeBrowse is the dialog to login or register for a GenomeBrowse account. You may also see this dialog if you choose not to have your credentials saved or have previously logged out of GenomeBrowse. See Login or register for a GenomeBrowse account.

Login Page

Login or register for a GenomeBrowse account

Login

If you have an existing GenomeBrowse account, enter in your email address and password. You can optionally uncheck the “Stay logged in” option to have GenomeBrowse not store credentials locally and require logging in again after relaunching the software. After the account information is filled in, click Log In.

To recover a lost password go to http://answers.goldenhelix.com/account/signin/?next=/ and click on the link to “send your email a password reset link”.

Register

If you do not have an existing GenomeBrowse account, click on the Register tab and fill out the registration form. Once the required fields have been filled in and the license agreement has been accepted the Register & Log In button will become active. You can optionally uncheck the “Stay logged in” option to have GenomeBrowse not store credentials locally and require logging in again after relaunching the software.

The GenomeBrowse account will also be the credentials used to log into the answers.goldenhelix.com community site.

Example Project

To try GenomeBrowse without registering first, click on the Open a Cloud-Based Exome Trio Project button. The project is fully usable but changes cannot be saved.

Adjusting Proxy Settings

To allow GenomeBrowse to communicate with our data servers, if your institution has a proxy server, the proxy settings need to be set appropriately. Please request assistance from your IT department if needed for the proxy settings.

To change the proxy settings, from the Login and Register dialog, go to GenomeBrowse > Proxy Settings. Adjust the proxy settings as required and click OK.

If you have already logged in and are in a project, you can still adjust the proxy settings from Tools > Proxy Settings. You may need to restart the program for all uses of the network to properly pick up the new settings.

Create a New Project on Launch

If an existing project is not detected, then on launch the New Project dialog will be presented. This asks for the project name as well as the genome build to use in the new project.

Set the project name and select the species and build to use from the genome assembly drop-down menu.

If the species or build is not included in the list, you can create a new genome assembly using the Convert Source Wizard as long as there is a reference sequence available for that particular species and build. See either Convert a 2Bit File or Converting a FASTA File for more information. The Convert Source Wizard can only be launched from the Data Source Library or from the GenomeBrowse File menu in an existing project, so specify a temporary genome for a temporary project. Once the new genome assembly is created a new project can be created. See Open a New Project from an Existing Project.

Download Reference Sequence Question

If a reference sequence for the genome selected exists on the public data annotations repository, and the reference sequence is not detected in the User Annotations folders, a question dialog will appear asking whether or not the reference sequence should be downloaded. See Download reference sequence question.

Download Reference

Download reference sequence question

To prevent this dialog from reappearing for the specific genome, check the “Don’t ask about this genome again” box at the bottom of the dialog.

Otherwise, to download the reference sequence in a background process, click Yes. To not download the reference sequence, click No.

For more information on downloading annotation sources see Download Window.