About Me
👋 Hi, I’m @DAWells
🦠 I’m interested in using multiomics and AI to treat disease
👨💻 I'm using long/short read NGS and knowledge graphs
Here I post useful snippets of code, demonstrations, and explorations of statistical techniques.
If you would like to contact me please get in touch through linkedIn.
By any means
The impact of different averages on rankings.
Exploring cancer types with neo4j
How to identify and visualise clusters in knowledge graphs.
Codon pair optimisation
Optimising genes with a genetic algorithm.
Matplotlib cmap
Simple demos of matplotlib's cmaps.
Flu subtypes
How is the flu sequence data distributed across subtypes, hosts and countries on the NCBI data base?
Confusion matrix
When reporting binary classification models, just looking at accuracy doesn't give the full picture. You need sensitivity & specificity, or precision & recall.
ggtree samples
Code snippets for various ggtree examples.
Ordinal GLM
When a response variable is ordered categories you can predict all categories using a single proportional odds model, instead of separate logistic regression models.
Phylogenetic mixed modelling
Simulate data for a phylogenetic mixed model using a phylogenetic tree to impose the phylogenetic covariance structure.
Gaussian mixture
Unsuperivsed classification based on bivariate data using a gaussian mixture model.
Power & resolution
When binning a continuous variable, e.g. into high and low, positive and negative, you lose information and statistical power.
Additive mixed modelling
Fitting an additive mixed model to account for both long an short term effects of time while fitting an autocorrelation structure to the residuals.
Gaussian process
Fitting a gaussian process to time series data. Using this approach domain knowledge can be used to choose an appropriate covariance function.
Graphic Cite
Web scraping, analysing, and interactive visualisations of data on scientific publishing.
The Denatured
A pop science outreach website produced by a small team of writers and vloggers which I organise.
Jupyter Slides
Easily turn your code, workflow, and results into a presentation. This is great for sharing results with or without your code.