Paul Harrison

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Home page of Dr. Paul Harrison. I currently work for the Monash Bioinformatics Platform.

pfh@logarithmic.net

@paulfharrison

PGP public key
Fingerprint B829 F851 00B7 9CB7 6897 DCA7 A881 5DA8 5150 5ABF

Bioinformatics software

Weitrix: Bioconductor R package. Tools for working with a matrix of data measured with varying precision or with missing values.

Topconfects: Bioconductor 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Nesoni: (No longer maintained.) 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) Workshop material introducing R.

Programming and tidy data analysis in R (2019) (based on an ealier workshop R more (2016)). Workshop to go from beginner to intermediate R usage, which I have developed and presented with other members of the Monash Bioinformatics Platform and the Monash Data Fluency initiative.

Linear models in R (2018) Workshop material introducing linear models in R. Linear models are a very broadly useful statistical tool, and also necessary background knowledge for using Bioconductor packages such as limma.

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.

>> Fun and personal stuff




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