In this post I’ll describe a computational method for splitting two sides of a cell biological structure. It’s a simple method that relies on principal component analysis , otherwise known as PCA.

Having recently got my head around violin plots, I thought I would explain what they are and why you might want to use them. There are several options when it comes to plotting summary data. I list them here in order of granularity, before describing violin plots and how to plot them in some detail.

I realised recently that I’ve maintained a consistent iTunes library for ~10 years. For most of that time I’ve been listening exclusively to iTunes, rather than to music in other formats.

A bit of navel gazing for this post. Since moving the blog to wordpress.com in the summer, it recently accrued 5000 views.

The transition for scientific journals from print to online has been slow and painful. And it is not yet complete. This week I got an RSS alert to a “new” paper in Oncogene.

An IgorPro tip this week. The default font for plots is Geneva. Most of our figures are assembled using Helvetica for labelling. The default font can be changed in Igor Graph Preferences, but Preferences need to be switched on in order to be implemented. Anyway, I always seem to end up with a mix of Geneva plots and Helevetica plots.

Last week, ALM (article-level metric) data for PLoS journals were uploaded to Figshare with the invitation to do something cool with it. Well, it would be rude not to. Actually, I’m one of the few scientists on the planet that hasn’t published a paper with Public Library of Science (PLoS), so I have no personal agenda here. However, I love what PLoS is doing and what it has achieved to disrupt the scientific publishing system.

What is your h-index on Twitter? This thought crossed my mind yesterday when I saw a tweet that was tagged #academicinsults It occurred to me that a Twitter account is a kind of micro-publishing platform. So what would “publication metrics” look like for Twitter? Twitter makes analytics available, so they can easily be crunched. The main metrics are impressions and engagements per tweet.

I thought I’d share a procedure for rotating a 2D set of coordinates about the origin. Why would you want do this? Well, we’ve been looking at cell migration in 2D – tracking nuclear position over time. Cells migrate at random and I previously blogged about ways to visualise these tracks more clearly. Part of this earlier procedure was to set the start of each track at (0,0). This gives a random hairball of tracks moving away from the origin.

What does the life cycle of a scientific paper look like? It stands to reason that after a paper is published, people download and read the paper and then if it generates sufficient interest, it will begin to be cited. At some point these citations will peak and the interest will die away as the work gets superseded or the field moves on. So each paper has a useful lifespan.