Category: Bio-IT

Anything specific to the Bio-IT Project

Cheat Sheets

Here is a collection of cheat sheets that Bio-IT community members have found useful. Bash: Python (generic): Python (data analysis/pandas): R (data analysis/dplyr/tidyr): Data transformations in… Read more »

display git branch and status in shell prompt

When coming back to a project after a bit of time away, I used to always lose track of which branch I was working on. Now I have the branch name displayed automatically in my shell PS1, as well as a colour-coded indication of the current repo status, to prevent me from making a bunch of changes and then realising I’m working on the wrong branch!

Brandon Rhodes – Pandas from the Ground Up

A great video tutorial introducing pandas – the data analysis library for Python, not the endangered Asian bear species. Brandon is an outstanding instructor, and the session starts with the basics of data handling, building up to the more complex and powerful applications of the library to data handling, exploration, analysis, and visualisation.


A collection of EMBL utility scripts. Includes scripts to simplify cluster interaction, job submission, file-sharing and local use of docker.


A convenient script to automatically generate iTol tree annotation files from spreadsheets.

Useful Links

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Useful email addresses Topic-specific contacts can be found in each of the preceding sections. For advice/help, try one of the addresses listed below. Bio-IT:, for further info check our… Read more »