DNA-seq disambiguation enabled

Hi Brad,
Here's a pull request proposal for enabling DNA-seq disambiguation. I also modified the qcsummary code to work for all current cases (```sample["algorithm"]``` does not exist for the variant pipeline). 

I further modified the ```run_info-explant.yaml``` file to include a case for bwa. I noticed that the variant pipeline is run first, ```project-summary.yaml``` gets generated, the RNA-seq pipeline gets run and a new ```project-summary.yaml``` produced, overwriting the old one (i.e. effectively leaving the summary for RNA-seq only). This may not be expected behaviour?