I’ve created a new R function called spreadPoints, in my basicPlotteR package.
A couple of weeks ago my good friend Steven McGee Callender planned a hiking trip in the Arrochar Alps. He managed to get me, Amy Thompson and Justin Purefoy to join him. We selected Ben Vorlich as an achievable goal for an inexperienced crew. We parked up on the North West edge of Loch Lomond and set off on the route described here.
Firstly, what is a homoplasy? It is a trait (for example, a nucleotide at a position in an alignment) that is shared between tips that their immediate common ancestor doesn’t have.
Today I’m going to write about creating an R package 📦. It’s very easy, and something I should have learnt a long time ago. Before I start, here are a couple of very good tutorials for creating an R package:
Writing an R package from scratch
Hadley Wickham’s R package documentation
Whilst I wait for a set of around sequences to be processed, I thought I would remind myself how to do multithreading in R.
Joanna and I are headed up to Northern Ireland today, Lydia (Joanna’s sister) is getting married. Today I was working on some Java code I wrote a few years ago to parse a Newick formatted phylogenetic tree. Whilst it is fresh in my mind, I thought I’d write a quick post - also the bus takes ages!!
A phylogenetic tree, describing the ancestral relationships between a set of nucleotide sequences, can be stored can be stored in a Newick format. A detailed description of this format can be found here. The Newick format looks like this:
I finally decided to upgrade my work computer and build a new one! After spending loads of time reading and comparing (mostly using pcpartpicker until I landed on the following parts, which I bought from komplett:
Today I’m heading to Milan, Italy, to meet up with Joanna, who’s been over there for the last couple of days for a meeting. To pass the time in the airport, I wrote this post about multithreading in Java.
We’re frequently wanting to label points in our scatter plots but they almost always overlap! 😠 Enter my addTextLabels() function.
I’ve decided that some of my posts should document useful things I’ve built, hopefully making building them in the future a little easier. I am starting with our bicycle stand. 🚴
