LiceBase is (not) just a web-site

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It's just a web-site

LiceBase is just a website. As such it consists of web-pages and hyperlinks between them. There are also web-forms for data entry and searches. As with most web-sites how to use them should be more or less self-explanatory. Also, most explanations will be embedded into the web-pages, e.g. into web-forms like shown below:

Web-sites also change over time as more content is added. That is the same here, so a little bit of exploration is required.

Bookmarks and links work normal, so that you can link to almost any page in LiceBase. 

It's an account based web-application

LiceBase is not a static web-site, but a complex bundle of web-applications (just like Facebook or Google+). You can interact with the site, make new content and annotate genes and experiments if you have an account. You can also write a Blog or ask questions as Forum entries. You can also write your own documentation. 

Some important points to note:

  • You need to login to get full access to all functions. The site can look different if you are not logged in.
  • Most parts of the site is not indexed by Google of other search engines. You can use the site-search instead:

 

  • You can contribute actively by using "Web 2.0 features" like writing Blog posts, Forum entries, etc.

 

 

We are using established standard software, namely Drupal and GMOD tools to build LiceBase.

  • Drupal is a content management system that is highly configurable and allows to develop very powerful web-tools. It has a huge amount of features and enables 
  • Tripal is a collection of extension modules for Drupal to create genomics oriented web-sites (generates Gene and Organism pages) 
  • GBrowse is a web-based genome browser. GBrowse comes with its own user documentation.
  • NCBI Blast+ commandline tools are used for sequence search (not the web interface)
  • The web interface to Blast is based on the GMOD component Blast Graphic Viewer