I already build script using GATK queue , btw are there any specific tutorial that can guide me to set up my gatk queue to my local galaxy tool or just follow add-tool tutorial in galaxy document.
Any suggestion are most welcome
Thank you,
Note
Hello,
Do you mean that you wish to create a Workflow in Galaxy to replicate the other script? I would suggest executing the steps first, then extracting a workflow. Then edit it to customize output names and such as desired. Here is some help to get you started: AdvancedWorkflow
Add tools from the Main Tool Shed as available and wrap any that are missing as the first step.
Best, Jen, Galaxy team
Oh acttually , I mean I already warp variant calling process using GATK queue , and I want to apply it as a single box in galaxy tool ,but I don't know how to apply it because my script write in java or I have to create another script to connect betweeon my GATK queue and galaxy ,btw I will take a look at your suggestion carfully.
thank you for your suggestion
many thanks
Note
