Work

I have worked on a variety of bioinformatics applications including model organism databases, genome browsers, and data analysis pipelines. See my google scholar for publications. Our jbrowse 2 paper was recently published which I was proud to be first author of.

Awesome lists

I like to keep track of various awesome or odd or interesting things in these repos. Please add your favorites with PRs :)

• oddgenes
• genomesignals
• awesome-jbrowse and awesome-jbrowse2
• awesome-genome-visualization
• technical-oddities

Bioinformatics tools

• secondary_rewriter - Adds SEQ/QUAL tags to secondary alignments in BAM/CRAM, written while learning Rust (2022)
• vcfverifier - Checks that the REF field in VCF matches an underlying FASTA reference genome, written while learning Rust (2022)

Utilities

• fml9000- A music player made using Rust and GTK4 (2022)

Visual art/code sketches

• chaosbot80 - A twitter bot to post fractals (2022)
• sm u20 - A submarine inspired audio/visual page (2022)
• nightskies - An audio/visual webpage (2022)
• interaction shadow - An noise/visual webpage (2021)
• reclaimed space - A visual webpage (2021)
• spiralzone - A visual webpage (2021)
• logistic map fractal viewer using Rust/WASM/React (2020)

Memorial

• myloveydove.com - a page for dixie code, using AWS lambda/S3 (2020)

Small projects

• github burndown a shiny app to plot "burndown" style statistics on github issues (2021)
• githubgraphjs visualize your Github Actions build times (2020)
• travigraphjs visualize your travis-CI build times (2019)
• tumblrgraph visualize tumblr reblogs with cytoscapejs (2017)
• resort visualize sorting algorithms (2017)
• ontograph visualize ontology (OBO) files (2016)

Setup

• dotfiles - also has various other details on my setup

Games

• gratiotquest multi-player websocket RPG where you are a pheasant running around a MS Paint world (2018)
• slap happy retrofitted a arcade cabinet with a raspberry pi (2018)

Coursera classes

• Experimental Genome Science, University of Pennsylvania 2013, statement of completion
• Computing for Data Analysis, John Hopkins 2013, statement of completion, with distinction

Gallery

MAFViewer plugin for JBrowse 1 viewing multiple genome alignment of C. elegans

GWASViewer for JBrowse 1

Tumblrgraph showing the reblog graph

Ontograph showing gene ontology terms

Github burndown chart showing the closing of issues over time

A high-resolution export of the logistic map fractal from my logistic_chaos_map renderer (full res)