EMBL Communications

As an Alumni of EMBL at Grenoble, France I like to read information about this international community. They just announced that their magazine EMBL Etc. is now fully, and only digital available online. EMBLetc Read the latest Issues of our magazine – EMBLetc. Issue 99, Winter 2022 Uncovering a microbe’s inner life From coast to… Read More »

Bioinformatics Training Materials

The Bioinformatics Core at the UC Davis Genome Center has all the Documentation for the workshops and courses, past and current, available on the bioinformatics training program GitHub page. The Genome Center Event Registration offers the same material in a different listing order based on the date. Most of the material is available as Github… Read More »

Python Data Science with Jupyter on Docker

Inspired by article “How to set up and run Python Data Science Development Environment with Jupyter on Docker” [Archived] Data Scientists coders must work with a variety of Data Science development tools, including the  Anaconda (or Miniconda) Python distribution platform, the Python programming language, the R programming language, Matplotlib library, Pandas Library, the Jupyter application, and many others. The article describes how to… Read More »

Next Gen sequencing in the Gobi desert

This video from Oxford Nanopore channel is showing how they use Nanopore on site in the desert, stating that “the future is already here” at time 3min40sec within the video. In the Gobi Desert, a team established a mobile lab for genome sequencing.Their objective was to investigate the microbiome of tiny mammals residing in this… Read More »

1985 computing in action

This YouTube video from the BBC Archive channel gives a glimpse of computing in 1995 when the DIGITAL VT100 terminal was king! Description based on info on YouTube: At the Boston software company Infocom, Fred Harris gets behind the scenes. The developer has had considerable success with its series of text-based adventure games, including The… Read More »

File not found. The vanishing concept of File

The complete title from this article is “File not found A generation that grew up with Google is forcing professors to rethink their lesson plans” (Archived version.) Here is a short summary: It’s the idea that a modern computer doesn’t just save a file in an infinite expanse; it saves it in the “Downloads” folder,… Read More »

Do yourself a favor: learn Markdown. BibTex for PubMed

In the series Do yourself a favor: learn Markdown I added a very useful web site for bibliography in R/Rstudio. The original post is here: Episode 5. BibTeX interface for PubMed Summary: A web site to create BibTex entries for bibliography in R Markdown. The most useful tool I found is from www.bioinformatics.org titled: TeXMed… Read More »

PyMOD 3: Structural Bioinformatics within PyMOL

Web page: http://schubert.bio.uniroma1.it/pymod/GitHub: https://github.com/pymodproject/pymod Reference Giacomo Janson, Alessandro Paiardini, PyMod 3: a complete suite for structural bioinformatics in PyMOL, Bioinformatics, Volume 37, Issue 10, 15 May 2021, Pages 1471–1472, https://doi.org/10.1093/bioinformatics/btaa849 Abstract The PyMod project is designed to act as a fully integrated interface between the popular molecular graphics viewer PyMOL, and some of the most… Read More »

Explore 800 medieval manuscriptsof France and England

Now for a look back in time, when DNA was far from being discovered! https://manuscrits-france-angleterre.org Some links will go to the British Library in England: https://www.bl.uk/medieval-english-french-manuscripts Other links will be from the National French Library (Bibliothèque Nationale de France, BNF) with an English version: https://gallica.bnf.fr/accueil/en/content/accueil-en Credit: Image on Bristish Library page https://www.bl.uk/medieval-english-french-manuscripts