The Geneious Prime Plugin Development Kit allows anyone to start extending Geneious Prime with their own functionality:
- Add your favorite algorithm, database or visualization to Geneious Prime
- Write a plugin for your own command line program and let Geneious Prime take care of the front-end for you
- Create a top secret plugin that gives your researchers an edge over the competition
Wrap Up a Command Line Program
If you have an existing command-line program that you want to run from inside Geneious Prime you might be able to use the graphical wrapper plugin creator to do that without writing any code.
Install the above plugin in Geneious Prime and use Create/Edit Wrapper Plugin in the File menu to get started. Our RAxML, Garli and FastTree plugins were created this way.
Automate Your Analysis
Workflows are another great way to tailor Geneious Prime. In addition to all of the built-in workflow components, you can write small snippets of Java code to perform custom steps. This is a great way to begin coding tools in Geneious.
Workflows are built into Geneious Prime under the Tools menu or in the toolbar.
Develop Like a Pro
If you are a capable Java developer and you want to have complete control over your creation then the dev kit has everything you need. Most of the premium functionality built in to Geneious Prime is created with the same API.
For many years I’ve wanted a friendly, menu-driven interface to our Glimmer program, but my research group has never had the resources available to build one. The Geneious Glimmer interface is terrific; it will allow any scientist to find genes in almost any bacterial, viral, or archaeal sequence, without requiring background expertise in Unix command-line programs. I’m also very pleased that Geneious makes Glimmer available across multiple computer platforms, including Windows and Mac.
We’ve been using our Geneious licenses a lot and really like the software. We’ve written several plug-ins ourselves and are using it more and more to analyze our data.
It’s not just about the buttons. From a user’s perspective, Phobos generates annotations, and Geneious handles annotations beautifully. The integration was obvious! And from a technical perspective it was easy to achieve, because it was simple to parse the outputs from Phobos into repeat annotations for the Geneious interface.
TopHat is a robust tool, but it was designed with experienced bioinformatics scientists in mind. Geneious makes TopHat accessible to many more users through the same powerful, intuitive user interface they have with other Geneious analysis tasks.