Sr. Engineer, Bioinformatics · Research
BioMarin Pharmaceutical, San Rafael, CA.
I develop scientific web UIs and databases.
me
- currently into
- R/Shiny, Elm, JS - Hyperapp, React, Baobab, custom & 3rd party datatables, jQuery
- Tools - GitLab/CI, Docker, Parcel, Webpack, Brunch, Gulp, Browserify, Docco, Tape, Mocha/Chai/Sinon
- Dataviz - D3, BioJS, Highlight.js, Chart.js, Crossfilter, DC.js, Processing.js, Cytoscape, Spotfire
- Design Kits - UIKit, Semantic UI, Material UI, Bootstrap, FontAwesome
- RDBMS - PostgreSQL, MySQL, Oracle
- NoSQL - Neo4j, CouchDB/PouchDB, Vertica
- Services - Node: Hapi, Express
- Data - bioinformatics, genomics, phenomics, ontologies, EMR/EHR, custom annotations, projects/workflow/process systems
- fun
- coaching my son's soccer team
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triathlons, ultra running, cycling
-
race reports
slides - from talks i've given
- Cypher vs SQL
- Informatics in Drug Discovery, 2013. (Novartis internal.)
Marionette.js- A JS Interest Group presentation. (Novartis internal.)
opensource
myvariantjs-demo- An example web app that demonstrates using the myvariantjs lib to query MyVariant.info
appshots - example pics of things i've built
- Variants Viewer
- A full-stack web app for calculating gene mutation incidence rates associated rare diseases in ethnic sub-populations.
MyVariant Search- A search UI for the MyVariant.info web portal. Demonstrates using the myvariant.js node module I open sourced. (See above.)
Scriptr- A prototype web system for running backend research informatics python scripts against genomics data.
SPOT- An Oncology research web app for shRNA data.
BSR- A research web app for registering biological samples.
CouchDB- A set of prototype and prod CouchDB apps.
Invivo Publisher- An Oncology research web app for publishing study data to an internal Sharepoint repo.