Developing nf-core DeepVariant, a Google variant caller: A tutorial for noobs using Nextflow
This blog post is essentially a list of things I wish I knew before I started making an nf-core pipeline, which would have made things easier.
Over the last few years open-source has been increasingly becoming the norm, even in Bioinformatics. The number of high-quality applications which are freely available on GitHub and other Git providers is increasing, such as the pipelines that the Broad institute uses for production.
In December 2017, the team at Google Brain joined the effort by releasing an open source, deep learning based variant caller: DeepVariant. DeepVariant outperforms its competitors by accuracy – it even won the accuracy award at the precision FDA Truth Challenge.