Hi everyone,

I am currently trying to create my own pipeline using UGENE where we are able to create our own custom pipeline using its Workflow Designer. My pipeline is to call our sequence from Sanger sequencing, do quality trimming and proceed to de novo assembly with CAP3.

This works well except that during assembly, it gathers different samples and make an assembly out of it instead of 1 sample => 1 assembly.

I am wondering if there is anyone is familiar with the Workflow Designer in UGENE? I know that we can modify the workflow file (.uwl) but it looks like it is not written in a common programming language.

Much appreciated any help. Thank you.