Posts tagged 'programming'

CodeNeuro NYC 2015

Last weekend I attended the CodeNeuro NYC conference, which is a conference for neuroscientists, programmers, and everything in between. It was a unique experience because it had both the excitement and energy of a tech conference, and the pure, unadulterated zest for knowledge of a scientific conference.

Teaching “Data cleaning”

Our compute cluster is down for maintenance, so obviously instead of working on my advancement exam presentation, I’m gonna write a blog post about teaching “data cleaning” to graduate students in UCSD’s BIOM 262: “Quantitative Methods in Genetics” class, where I taught Python, IPython Notebook, and pandas, using Software Carpentry techniques for teaching technical skills.

You can code, too!

Recently, I’ve had several conversations with biologists who know they should probably learn to code, but the whole concept is so daunting and they’re too busy with their research anyway. I’ve tried to convince them to pursue programming, not just because it’ll make their research analyses …

prettyplotlib: Painlessly create beautiful matplotlib plots

A while back I wrote a few tutorials about how to work with Python’s plotting library, matplotlib, so that it behaves nicely and produces beautiful plots. Well, I got tired of tweaking every single figure individually so I wrote this library, prettyplotlib to have pretty default plots in Python …

The R script that will change your life

If you use the R programming language, you probably know how much of a pain it is to keep your packages updated. You’ve run update.packages(...) on the few that you want to keep up to date, but it’s a pain in the neck to do that for …

Beautiful boxplots and sassy small multiples

Last week, I posted about implementing design principles in Python’s graphic library, matplotlib. I received lots of great feedback, and made another tutorial, specifically about boxplots and “small multiples”. Small multiples are a concept coined by Edward Tufte about having many plots using the exact same axes, allowing the …

Implementing graphic design principles in Python’s matplotlib

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Tired of ugly 2d histograms and bar charts in matplotlib? Read about good chart design but not really sure how to implement it? Check out my talk/tutorial on implementing graphic design principles in Python’s matplotlib! I gave this talk on April 10th 2013 to UCSD’s Scientific …