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I work on statistical models and their applications for biomedical data. At the moment I am working on Bayesian modelling of eQTLs using allele specific expression in celltype-specific studies of immune-mediated diseases. Previously I worked on quantifying expression heterogeneity in single cell RNAseq data using a Bayesian approach.

I maintain some R packages:

I currently maintain two parts of the Bioconductor book ecosystem:

Book/Chapter Devel Release Issues Pull requests
OSCA devel release GitHub issues GitHub pulls
OSCA.multisample devel release GitHub issues GitHub pulls

I also contribute to:

Some other stuff:


  1. scater Public

    Clone of the Bioconductor repository for the scater package.

    R 86 34

  2. bayefdr Public

    Forked from VallejosGroup/bayefdr

    Bayesian estimation and optimisation of expected FDR and expected FNR


  3. densvis Public

    Forked from hhcho/densvis

    R package implementing the density-preserving data visualization tools den-SNE and densMAP

    C++ 1 2

  4. snifter Public

    R wrapper for the python openTSNE library

    R 3 2

  5. contrast Public

    R contrast package

    R 1 2

  6. Interactive Heat Maps for R Using plotly

    R 325 70

669 contributions in the last year

Dec Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Mon Wed Fri

Contribution activity

November 2022

Created 2 repositories
Opened 7 pull requests in 3 repositories
catavallejos/BASiCS 2 open 3 merged
idmn/ggview 1 open
Alanocallaghan/snifter 1 closed
Reviewed 1 pull request in 1 repository
Alanocallaghan/scater 1 pull request

Created an issue in Alanocallaghan/scater that received 4 comments

fill_by for violin plots

See discussion in #174 How should this handle positions? eg these last examples seem variously sub-optimal library("scater") example_sce <- mockSCE()

Opened 6 other issues in 5 repositories
catavallejos/BASiCS 1 closed 1 open
ropensci/iheatmapr 1 closed
Alanocallaghan/plotlyutils 1 closed
Alanocallaghan/nalar 1 open
Alanocallaghan/contrast 1 open
50 contributions in private repositories Nov 1 – Nov 30

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