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Hi there 👋

I am a programmer/developer with the LTRI at Mount Sinai (Toronto, Canada) working jointly with the Campbell and Jackson groups with experience in:

🐍 programming and software development
📌 Data science/analysis
♋ cancer genomics
🐛 public health pathogen analysis
💻 single cell multi-omics


🔬 By day: dev, pipeline engineering, coding, statistics, CI/CD
🎓 By night: pursuing an online MSc. in Data Science, University of Texas at Austin
⏰ Off the clock: I can be found in a 🛶 or seeking a new international adventure ✈️. Almost always looking for a good 🍺.




Check out some of my software packages!

🏎️ FASTAfurious
🍄 spora
🔀 nf-processes
📊 cytomarker


Also check out some of the public Github software that I have contributed to!

🦔 pangolin
🌲 ggtree
🔎 civet/civet3
⚡ snipit
📶 infercnv

Matthew Watson's Projects

augur icon augur

Pipeline components for real-time phylodynamic analysis

auspice icon auspice

Web app for visualizing pathogen evolution

beernanza icon beernanza

memory match tile app implemented using a Swing-based GUI and object oriented concepts

copyscat icon copyscat

Inferring CNV data from single cell ATAC seq

covid-19-analysis icon covid-19-analysis

data visualization & widgets of covid-19 public dataset analysis using Jupyter (R & Python)

cytoviewer icon cytoviewer

An interactive multi-channel image viewer for R

dash-extensions icon dash-extensions

The dash-extensions package is a collection of utility functions, syntax extensions, and Dash components that aim to improve the Dash development experience

dash-uploader icon dash-uploader

The alternative upload component for python Dash applications.

ds_jupyter icon ds_jupyter

A variety of jupyter notebook exercises for data science and bioinformatics

fasomerecords icon fasomerecords

Extracts FASTA records from multiFASTA file based on a list of FASTA headers

fastafurious icon fastafurious

:racing_car: Bundled utilities for manipulation and integration of FASTA files

ggtree icon ggtree

:christmas_tree:Visualization and annotation of phylogenetic trees

kitcompare_rna icon kitcompare_rna

An RNA-seq data pipeline to stratify low-input FASTQ files based on library preparation

mitch icon mitch

An R package for multi-dimensional pathway enrichment analysis

ncov-tools icon ncov-tools

Small collection of tools for performing quality control on coronavirus sequencing data and genomes

ncov-utils icon ncov-utils

Utility scripts and modules for processing ncov19 samples using the ivar pipeline

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