June 2015 - Dave Tang's blog

Getting started with SQLite

programmingDavoJune 18, 20151

SQLite is an embedded relational database engine that is self-contained, meaning that it has everything it needs to run. You don’t need to configure anything because it’s serverless and it has a transactional SQL database engine. To get started all you need to do is download the relevant binary file. My motivation for checking out…

Paired end alignment using Bpipe

bioinformaticsDavoJune 4, 20150

This is a continuation of my post on getting started with Bpipe. In this post I followed the paired end alignment example from the documentation, with a few adjustments. This pipeline generates a random reference sequence, generates paired end reads from the reference, and aligns these reads back to the reference using BWA.