Bioinformatics Seminar
Time:
Venue: Na
8 December 2020
NaBioNix: functional
Justin BedoWEHI Bioinformatics
reproducible bioinformatics workflows;A challenge for computational biologists is to make our analyses reproducible - that is ; easy to rerun ; combine ; and share ; with the assurance that equivalent runs will generate identical results. Current best practice aims at this using a combination of package managers ; workflow engines ; and containers. In this talk I will present BioNix ; a lightweight library built on the Nix deployment system. BioNix manages software dependencies ; computational environments ; and workflow stages together using a single abstraction: pure functions. BioNix lets users specify workflows in a clean ; uniform way ; with strong reproducibility guarantees. I will also discuss the application of BioNix to the Stafford Fox Rare Cancer project. Within this project BioNix has been used to manage a complicated workflow across >100 whole genome and whole exome sequences. I will discuss lessons learnt from this application and the future direction of BioNix.;;;;