PGP public key
Fingerprint B829 F851 00B7 9CB7 6897 DCA7 A881 5DA8 5150 5ABF
Bioinformatics software
Topconfects: R package. Top differential expression by confident effect size. A more intuitive way to use "TREAT".
Varistran: R package. Variance stabilizing transformation for RNA-Seq data. This is a useful pre-processing step prior to visualization, and also makes clustering and statistical analysis more straightforward. Includes a shiny app for assessing RNA-seq data quality with heatmap and biplot.
Tail-Tools: Analysis pipeline for PAT-Seq data.
Nesoni: Disorganized pile of tools for processing bacterial high-throughput sequencing data.
Plasmodium Autocount and Semiautocount: Cell counting on blood smears.
Writing
Publications on Google Scholar.
PhD thesis (2005) on image texture synthesis. I also have several publications relating to my PhD work on texture.
Introduction to R, version 2 (2018) (version 1 here) and R more (2016) Course notes introducing R, which I have developed and presented with other members of the Monash Bioinformatics Platform.
Linear models, a practical introduction in R (July 2015) A Jupyter notebook.
Dance of the CIs, a Javascript app version of the "Dance of the CIs" from the "New Statistics". Illustrates the meaning of confidence intervals, standard error, standard deviation, and prediction intervals.