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Name: Cole Brookson

Type: User

Bio: Computational biologist interested in statistical methods, species interactions, disease dynamics, and meta-science.

Twitter: cole_brookson

Location: Montreal, QC

Blog: https://colebrookson.com/

Hi I'm Cole 👋

I am a computational biologist, currently a PhD student in the Carlson lab at Yale University, and with the Verena Institute. Feel free to call me any pronouns, but I typically use he/him or they/them.

My PhD research is mostly thinking about how we can understand and predict viral spillover risk. I also think a lot about food webs, fisheries, and the theory behind ecological forecasting 📈. I also have active research projects on computational pedagogy and metascience regarding publishing and equity in ecology specifically.

I am extremely passionate about open science and computational literacy in the biological sciences, and I teach introductory workshop series in programming and reproducibility methods for undergrad and grad students. 🖥️ I built and (sort of) maintain the UofT R Manual which is a great intro resource for those new to R.

Here on my GitHub are all the projects I'm working on, a bit of a mixture of research projects and teaching materials. Also even though I'm not a software person by trade, I do love building little tools and fun projects for myself, as well as learning new languages.

You can learn more about me and my various research projects here

I absolutely love talking about software, statistical quandries, and fun ecological problems. If you think we have similar interests, reach out and let's have a virtual or in-person coffee ☕

Cole Brookson's Projects

arbo-comp

Vector competence of arboviruses

bati-report

Short report of sea lice trends in and around the Broughton Archipelago during the BATI program :fish:

binder-conda-test

binder-test

Testing out how to use binder!

boyle_et_al

colebrookson

coles-research

My research website based off the hugo toha theme ! :computer:

conda-testing

coral-restoration

When is coral restoration viable for conservation 🐟🐠

covid-19

diffeqcallbacks.jl

A library of useful callbacks for hybrid scientific machine learning (SciML) with augmented differential equation solvers

disease-overyield

How do competition overyielding dynamics change with the introduction of parasite dynamics?

eeb-r-manual

Code, text, notes, and infrastructure to support the R manual for undergraduate students in the Ecology & Evolutionary Biology department at the University of Toronto :desktop_computer:

ef_activities

Hands-on activities associated with the Ecological Forecasting book and graduate class

elements-of-mathematical-ecology-reading-notes

Reading notes from short course being run by Mark Lewis at UAlberta in Fall 2020.

example-models

Example models for Stan

food-web-architecture

analysis of food web architecture between ecosystems

git-demonstration

How do we use git/GitHub for version control?

good-enough-repository

It doesn't have to be perfect, but let's make it good enough! A workable repository structure for ecology :fish:

grantmcdermott.github.io

Repo used for my website.

gsl

BIOS2-CIEE workshop

high-dim-trait-niche

How do we best make use of high-dimensional trait data to predict Albacore tuna diets? :fish:

jakelawlor

profile readme

jonbra.github.io

Testing how to use Jekyll and GitHub Pages to make a webiste.

jsp-data

Juvenile Salmon Program data

julia-course

Following along with 'Introduction to Computational Thinking' with the purpose of learning Julia better

juvenile-salmon-sealice

Sea lice infestation on Pacific Salmon using data from the Hakai Institute Juvenile Salmon Program (2015-2019)🐟

k-bosko.github.io

personal website with portfolio

knitr-examples

A collection of knitr examples

kx-sea-lice

Stock-recruit models for the effect of sea lice on wild salmon returns in the Kitasoo / Xai’xais nation

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