My research focus in microbial genomics, bioinformatics and novel deep learning methods. Most of what you will see here will revolve around these topics.

I mainly code in Python through Visual studio code, and R through R studio. For machine learning tasks, I tend to gravitate towards tensorflow. My work is usually on a Linux Ubuntu workstation and I manage my environments using conda.

“The more I study, the more insatiable do I feel my genius for it to be.” - Ada Lovelace. 30 July 1843

Topics

Baby’s first steps

• Genome Plotting
• Multiple Sequence Alignment
• Retrieving Genomes from NCBI
• PyMOL Basics
• Plotting Pairwise matrices

Look ma no hands

• Tensorflow Basics
• Dereplicating Genomes
• Multiple Sequence Alignment Plotting
• Plotting protein domains
• Building a Phylogenetic tree
• Visulisation of Phylogenetic tree using R

Yer a wizard

• Protein Language Models
• Protein structure prediction using ESMFold
• Byte Pair Encoding
• Chaos Game Representation of Nucleic Acids

Julia for Bioinformatics

• Learning Julia for Bioinformatics

On programmatic medical statistics

• On survival analysis and KM plots

Other stuff

These are stuff that are bioinformatics adjacent, yet not necessarily directly related. They include personal presonal preferences, debugging and editing findings, and other stuff I am interested in.

• oh my zsh (Now with 100% more colours!)
• word2vec word semantics
• Perl Locale warning