Os Mutantes: an implausible naming system for SARS-CoV-2 mutants

The scientific response to the COVID-19 pandemic has been astounding. Aside from efforts to generate vaccines, the genomic surveillance of the virus has been truly remarkable. For example, the nextstrain project has sequence many SARS-CoV-2 genomes. In fact, the rapid identification of multiple new strains and mutations by diverse groups of scientists has resulted in […]

You Better Run: recovering from injury

Reading about someone else’s recovery-after-injury story can be a bit dull. At least that was my conclusion after pressing delete on my story a moment ago. Having spared you the details, the summary is: I got injured. It hurt. It took me a year to recover because I didn’t tackle the recovery properly. Measuring recovery […]

Target: monitoring a running goal in R

Many running races and events have been cancelled or disrupted due to the pandemic. To fill the void, I’ve been taking on Garmin’s “Challenges”. In Garmin Connect, you can accept a challenge set by Garmin (I think users can challenge each other too). Completion of these challenges gives the user points, which I’ve become somewhat […]

All My Trials: Impact of COVID-19 on rare disease clinical trials

The database clinicaltrials.gov is a web resource of clinical trials around the world. It has a REST API that gives access to clinical trial data. There are some resources available to interact with this resource using R, such as rclinicaltrials and ClinicalTrialsAPI. We were interested at looking clinical trials for rare diseases and particularly whether […]