Statistical hypothesis testing, commonly referred to as “statistics”, is a topic of consternation among cell biologists. This is a short practical guide I put together for my lab. Hopefully it will be useful to others. Note that statistical hypothesis testing is a huge topic and one post cannot hope to cover everything that you need to […]
Tag: IgorPro
The Digital Cell: Getting started with IgorPRO
This post follows on from “Getting Started“. In the lab we use IgorPRO for pretty much everything. We have many analysis routines that run in Igor, we have scripts for processing microscope metadata etc, and we use it for generating all figures for our papers. Even so, people in the lab engage with it to varying extents. The […]
Everything In Its Right Place
Something that has driven me nuts for a while is the bug in FIJI/ImageJ when making montages of image stacks. This post is about a solution to this problem. What’s a montage? You have a stack of images and you want to array them in m rows by n columns. This is useful for showing a gallery […]
The Digital Cell: Getting Started
More on the theme of “The Digital Cell“: using quantitative, computational approaches in cell biology. So you want to get started? Well, the short version of this post is: Find something that you need to automate and get going! Programming I make no claim to be a computer wizard. My first taste of programming was the […]
Adventures in code II
I needed to generate a uniform random distribution of points inside a circle and, later, a sphere. This is part of a bigger project, but the code to do this is kind of interesting. There were no solutions available for IgorPro, but stackexchange had plenty of examples in python and mathematica. There are many ways to do […]
Adventures in code
An occasional series in esoteric programming issues. As part of a larger analysis project I needed to implement a short program to determine the closest distance of two line segments in 3D space. This will be used to sort out which segments to compare… like I say, part of a bigger project. The best method […]
Weak Superhero: how to win and lose at Marvel Top Trumps
Top Trumps is a card game for children. The mind can wander when playing such games with kids… typically, I start thinking: what is the best strategy for this game? But also, as the game drags on: what is the quickest way to lose? Since Top Trumps is based on numerical values with simple outcomes, it seemed […]
Pledging My Time II
2016 was the 400 year anniversary of William Shakespeare’s death. Stratford-upon-Avon Rotary Club held the Shakespeare Marathon on the same weekend. Runners had an option of half or full marathon. There were apparently 3.5 K runners. Only 700 of whom were doing the full marathon. The chip results were uploaded last night and can be […]
Wrote for Luck
Fans of probability love random processes. And lotteries are a great example of random number generation. The UK National Lottery ran in one format from 19/11/1994 until 7/10/2015. I was talking to somebody who had played the same set of numbers in all of these lottery draws and I wondered what the net gain or […]
Pledging My Time
The end of the month sees the Coventry Half Marathon. I looked at what constitutes a good time over this course, based on 2015 results. I thought I’d post this here in case any one is interested. The breakdown of runners by category for the 2015 event. Male Senior (MSEN) category has the most runners, […]