University of Wisconsin–Madison

Category: Markdown

Bioinformatics, R, Python, and more on Campus – Fall 2025

Summary Workshop Series available on Campus on R and Python. (For more details see further below.) – UW Libraries – Steenbock Library Workshops – UW Data Science Hub / Software Carpentry – Social Science Computing Cooperative (SSCC) Steenbock Library Workshops See details on announcement page: Learn how to use Python and/or R programming languages for …

Do yourself a favor: learn Markdown – Episode 7: BibTeX for online articles

Summary A tool to create a BibTeX entry for online articles or blogs. Generate BibTeX from URL This is a follow-up on 6 “Episode”” in previous posts titled “Do yourself a favor: learn Markdown…” In a previous article (Sgro (2022)) I presented how to add bibliographical information within an Rmarkdown document (Allaire et al. (2023)) …

Jupytext 2-way reformat of Jupyter notebooks

Jupytext can save and reformat Jupyter notebooks I was trying to test a Jupyter notebook from NCBI titled “Getting Started with NCBI Data in Python” (March 2, 2022) that is now on a “Binder” web page. However, the system kept stalling, but I was given access to the “raw” script. To my surprise the format …

Learn Markdown – Episode 6. Convert Word to Markdown with pandoc

Summary Pandoc is a document converter for multiple type of files. Converting example Format conversion is a chore that often takes a lot of time. I recently wanted to convert a long MSWord document into a version of Markdown that I could use to update a software documentation. Pandoc can convert many documents types into …

Do yourself a favor: learn Markdown – Episode 5. BibTeX interface for PubMed

Summary A web site to create BibTex entries for bibliography in R Markdown. R and Markdown This is a follow-up on 4 “Episodes” in previous posts titled “Do yourself a favor: learn Markdown…” To add bibliographical information it is necessary to write the information of a paper in the BibTex format. BibTeX-files may contain four …

Learn X in Y minutes

Learn X in Y minutes In the past we had “flash cards” to memorize and review materials. This site Learn X in Y minutes has one-page reminders that can be used to re-learn material or get some idea of what the subject is about. For example I wrote a series of 4 posts titled  Do …

Do yourself a favor: learn Markdown – Episode 3, Academic writing

Academic writing with Markdown The origin of Markdown was a simple editing process to export web pages in HTML. In Episode 1 we learned that (original) Markdown has a simple syntax for enhancing text with rich elements while retaining the readability of a plain text format. Episode 2 explored Markdown variants and Markdown (free) software. In …

Do yourself a favor: learn Markdown – Episode 2

In Episode 1: Markdown is easy we saw how Markdown can simplify and streamline the creation of documents while working in easily readable plain text. In this episode we’ll explore: Markdown variations Since its original inception in 2004 by John Gruber, famous Apple commentator and online blogger as a plain text-to-HTML conversion tool, there has …

Do yourself a favor: learn Markdown – Master it in 10 minutes!

Episode 1: Markdown is easy, keeps things simple Markdown is… Markdown is a plain text formatting syntax that incorporates rich text elements while retaining the ease and readability of plain text. Why learn Markdown? Markdown greatly simplifies writing in the digital age and is a standard used on many web sites such as github. Markdown …