scikit-bio is a library for building bioinformatics tools and workflows in Python. It’s already a core dependency of QIIME, is extensively used in An Introduction to Applied Bioinformatics, and was the subject of my talk at SciPy 2014 (video) this past July. One of our focuses with scikit-bio is to make its functionality very accessible …
You can check out David Coil’s introduction to the project here. The workflow pre-print is hosted by Peer J here. Feel free to check it out! We would love any comments or suggestions. I was first introduced to the swabs to genome workflow project a little over a year ago. I had just started in the …
Almost exactly a year ago we finally wrapped up our undergraduate project focusing on sequencing and assembling reference genomes from the built environment. This project aimed to take undergrads through every step from starting with a swab to ending with a published genome announcement and data in NCBI. Over the course of the work, we …