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Statistical issues in the analysis of Illumina data

Mark J Dunning, Nuno L Barbosa-Morais, Andy G Lynch, Simon Tavaré, Matthew E Ritchie

Raw Data


The ftp site the raw data were hosted on is currently down.  An alternative location will be provided shortly.

Diagnostic plots


Bead level data



Bead summary data


Additional Files


We are grateful to Illumina for allowing us to make this data set publicly available. In particular, we thank Gary Nunn and Semyon Kruglyak for retrieving these data for us.


  • Full Analysis Script R code to read the bead level data above and re-produce all the figures and numerical values quoted in the paper. Note that reading the bead level data requires around 4Gb of RAM.