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  1. Home
  2. Tag: markdown

markdown

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

Understanding Python installation mess

Posted on November 22, 2022

Summary Useful ramblings about the difficulties to understand Python installation on macOS. In this Tutorial-like post we’ll see: – Where is Python installed, and which version – Upgrading to a new Python.org version, without replacement …

Posted in bash, bioinformatics, Computing, Docker, PythonTagged Docker, export, installation, jupyter, jupyter lab, jupyter notebook, macos, markdown, notebook, path, pip, python

Do yourself a favor: learn Markdown – Episode 4. Reproducible reports

Posted on June 11, 2021

The message The essential message is this: stop using Copy/Paste from one program to another (e.g. a chart from Excel to Word) as this is a manual process that is not reproducible and can easily …

Posted in Announcements, Computing, RTagged jupyter notebook, jypyter lab, knitr, markdown, python, R, reproducible report, reproducible research, Rmarkdown, RStudio

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

R courses and tutorials. Classic, Tidyverse, Data Wrangling, ggplot2

Posted on February 27, 2020

This is a list of R material that I found online that I think can be useful as reference or as working material to learn R / RStudio / Mardkown. I’ll try to separate the …

Posted in Announcements, bioinformatics, Programming, Python, R, StatisticsTagged Courses, data wrangling, Genomics, ggplot2, graphics, markdown, mining, pandas, python, R, Rmarkdown, Tidyverse, training, workshops

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