In creating a number of full stack projects, such as GRIT-realtime (for use at Sanger where it integrates with the local JIRA platform), university projects such as a COVID tracker which is still viewable Here as portfolio evidence.

In personal projects. I use a tool called Obsidian a second brain designed to powerful and customisable whilst making use of Markdown. In light of this I have written QuickAdd-NCBI, which adds taxonomic data from NCBI into a note, and contributed to a number of projects which extend the use of Obsidian such as QuickAdd-Books, Booksidian and Obsidian-Plotly. In the future I plan to create a full plugin to integrate a wider breadth of the NCBI API into Obsidian, especially due to the large number of biologists and bioinformaticians that use the software.

Javascript. Due to experience from the above I have al written a significant amount of JS as well as some small Javascript scripts for ToLQC which graph various statistics.

I have used Python in almost every project I have been involved with during my time at ARU and Sanger. The first being gEVAL_cleaner, this script would download cdna, cds, rna and protein data of a given organism and prepare it for use in genomic alignment.

Some components of GRIT-realtime were also written in Python, namely the script which pulls data from JIRA and massaged it into the format required for database uploading

I have also written a number of "bots", simple reporting scripts most of which pull various data from JIRA and post them to Slack channels. BTK-announcer relays ticket information on BlobTookKit requests to those involved with decontamination, Priority-list relays information on high priotity tickets to all, Weekly-report reports on what tickets have changed hands over the course of the past week for management.

There are also a number of smaller scripts, I haven't uploaded to GitHub. These include projects in gene expression over time, simple graphing and data parsing.

Snakemake. For a universioty project, I wrote a variant annotation pipeline using Illumina data.

Nextflow DSL2. I am currently working on translating the Snakemake annotation pipeline into Nextflow for wider adoption at Sanger in the DTOL project, This will be using the nf-core production guidelines, allowing for "plug and play" functionality.

I have also aided in the building of TeloSearch and TreeVal (NF-core standard), both of which are DSL2 pipelines in use at Sanger.