Cheeseman Lab Website

Source for the Cheeseman Lab website — a Jekyll static site studying kinetochore biology and chromosome segregation at MIT's Whitehead Institute.

The site is deployed via GitHub Pages: pushing to main rebuilds and publishes automatically. The custom domain is set in CNAME.

Layout

Path	What it holds
_pages/	The content pages (research, publications, resources, team, contact)
_data/	Structured content — publications.yml and team.yml — rendered by the pages
_layouts/, _includes/	Page templates and shared partials
assets/	Images, CSS, and other static assets
scripts/	Maintenance tooling (see below)
_config.yml	Jekyll site configuration

Updating publications

_data/publications.yml drives the Publications page. Refresh it with the fetch script, which pulls the full author record from OpenAlex (primary) and PubMed (secondary), drops datasets/meeting abstracts, and de-duplicates preprints against their published versions:

conda activate cheeseman-lab
python scripts/fetch_publications.py

See scripts/README.md for details.

Note: brand-new papers often appear in PubMed before OpenAlex links them to the author record, so the script may temporarily list a paper as a preprint or with abbreviated author names. Review the diff after running and hand-correct those entries until the indexes catch up.

Local development

If you already have a Ruby toolchain with Bundler:

bundle install
bundle exec jekyll serve

Then open http://localhost:4000. Edits to _data/, _pages/, and layouts reload on save (a _config.yml change needs a restart).

First-time Ruby/Jekyll setup (e.g. via conda):

conda create -n website
conda activate website
conda install -c conda-forge ruby compilers
gem install bundler jekyll
bundle install