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Markdown

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

Posted on September 2, 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 …

Posted in Announcements, bash, bioinformatics, Computing, containers, Docker, Docker, Markdown, podman, Programming, Python, R, Scientific Communication, shell, Statistics

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

Posted on December 26, 2023

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 …

Posted in bioinformatics, Books, Computing, Markdown, R, RStudio, Scientific CommunicationTagged bibliography, BibTeX, markdown, PubMed, R, Rmarkdown, RStudio

Jupytext 2-way reformat of Jupyter notebooks

Posted on March 29, 2023

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 …

Posted in bioinformatics, Computing, Markdown, PythonTagged bioinformatics, Jupiter, jupyter lab, jupyter notebook, markdown, python, Rmarkdown

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

Posted on December 30, 2022

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 …

Posted in Computing, Docker, Markdown, RStudio, Scientific CommunicationTagged Docker, markdow, pandoc, reproducible research, RStudio, scientific communication

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

Posted on October 28, 2022

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 …

Posted in Books, Markdown, Scientific Communication

Learn X in Y minutes

Posted on June 21, 2022

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 …

Posted in bash, bioinformatics, Computing, Markdown, Programming, Python, R, SQL, StatisticsTagged computer langages, quick learning

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

Posted on June 10, 2021

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 …

Posted in Announcements, Markdown, Programming, R

Do yourself a favor: learn Markdown – Episode 2

Posted on June 4, 2021

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 Markdown (free) software …

Posted in Announcements, Markdown, ProgrammingTagged markdown, Mathematical formula, MathJax

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

Posted on June 3, 2021

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 …

Posted in Announcements, Markdown, ProgrammingTagged formatting, github, html, markdown, MSWord, plain text, rich text

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