There’s plenty of guides to getting going on Mastodon, aimed at people leaving Twitter. I just wanted to post a couple of technical points about making the switch that might be of interest to people who maintain webpages with Twitter content (feeds, embeds). Mastodon status updates (feed/timeline) Twitter provided a widget that meant that an […]
Form and File: estimating running form in R
There are lots of ways for runners and cyclists to analyse training data. A key question most fitness enthusiasts want to know is “how am I doing?”. “How you are doing” is referred to as form. Unsurprisingly, form can be estimated in many ways. One method is using training stress scores (acute training load and […]
Get Miles: using treemap to visualise running distances
By 30th September 2022, I had clocked up a total of over 2000 km of running in 2022. This milestone was a good opportunity to look at how I got to this point. The code is shown below. First, we can make a histogram to look at the distance of runs. From this type of […]
Line Up: recommendations for the best human cell line
Here is a summary of the info I gleaned from asking for recommendations for the best human cell line. These were my criteria: For context, we currently use a number of human cell lines in the lab: HeLa, RPE1, HCT116, SKOV3; as well as many others in the past: HEK293, DLD-1, U2OS. I consider HeLa […]
Videotape: From Microscope To Figure
I recently did a webinar for ASCB called “From Microscope To Figure“. For posterity, I am re-posting the webinar here with some additional info. The webinar Useful links There was a request to share the tutorial I showed (in short form) to making montages in ImageJ. Q&A I didn’t get time to answer all the […]
I’ve Gotta Get A Message To You III: fixing SMTP on Raspberry Pi
Sometimes an update causes a chain reaction which borks a system. Here are some notes on how I fixed a SMTP mail issue on my Raspberry Pi camera project. A quick recap: the RPi camera takes pictures every ten minutes, each night the images get sent to a server and each week the transferred images […]
Pledging My Time V: analysing race results in R
It’s been a while since I posted a breakdown of half marathon times. The last time seems to have been 2018. I decided to give my old code a clean-up and quickly crunched the numbers from the 2022 Kenilworth Half Marathon. First, the results: Briefly, the code below reads in a csv file of race […]
Multiplex: comparing Plex libraries
This website is all about niche tech tips and this post is no exception. I run a Plex media server. This allows me to stream my music collection when I am out and about. Plex pass owners get the nifty plexamp app for listening to music, which I really like. The databasing for the movie […]
The Package: learning how to build an R package
I recently made my first R package and was asked how I did it. The answer of course was: I searched, read, and stumbled around until it was done. But having gone through the process I figured it was worthwhile summarising what I did and what I found tricky. First off, there are a ton […]
Tracking: announcing new R package TrackMateR
A short post to announce TrackMateR, a new R package to analyse TrackMate XML outputs. Code Instructions Background TrackMate is a plug-in for ImageJ which ships with Fiji. It’s essential for single particle tracking work, particularly for microscopy movies. For example, tracking the movement of fluorescent vesicles inside cells. A tracking session generates a TrackMate […]