A tutorial on creating a Python Sphinx project and generating PDF output using LaTeX on Linux.
An overview of my current note-taking set up using QOwnNotes and Nextcloud. I also discuss programs I have used in the past like Zim, org-mode and Joplin.
A tutorial on using Pandoc to convert Markdown to HTML using a CSS stylesheet and a custom template.
This was my attempt at introducing Python to a general audience at Tech me out at home — an online event organised by Pint of Science, Ireland.
Summary of changes in BioVM 18.04.1 — a Linux virtual machine based on Ubuntu for teaching and learning Bioinformatics.
An online Python course for beginners in programming
A Python script to obtain the complete taxonomic lineage of an organism from NCBI taxonomy data.
A new release of BioVM with updated software, Galaxy configuration, documentation and includes recommendations for installing new software.
This is a step-by-step tutorial on running an instance of the Galaxy platform (v17.09) for biomedical research on Ubuntu 16.04 LTS.
How to run containers of VIGA, QIIME, PyFBA, Cutadapt and DADA2 and a helpful wrapper script for non-root users.
This is a VirtualBox VM I made for QIIME 1.9 based on the current version Ubuntu MATE LTS (16.04.3) with some additional improvements.
Updating BLAST databases can can be done using the update_blastdb command but this script only updates databases if they are not being used.
This post is about the free and open source software I used for creating an online course.