Hi @zack,
Maybe one of the two approaches helps you to divide the analysis process in several steps: How to create an Analysis Service that obtains a final result based on "sub parts" (A Media Fill Kit and Vials example)
These are the two main ways to break down a process and obtain a final result based on previous information.
Note that we are just “adding” new input fields in a sample, if you want to make each step “1)extraction, 2)QC and then 3)test” dependent on a workflow, therefore step 2 can not happen before step 1 has been submitted, you will have to add new workflow states in the sample workflow by coding.