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Jon Manning ▴ 90@jon-manning-5708
Last seen 7.5 years ago
Hi Bioconductors, I'm using the phenoTest package to look for associations between various continuous and categorical clinical variables and methylation values stored in an eset-like object. As suggested I apply the BH method to correct for multiple testing probe-wise. However, as I understand it this does not account for variable-wise multiple testing, and with my collaborator introducing many new variables I'm concerned this will create unnecessary spurious associations. So the question is simple: should I just do a simple column (variable)-wise bonferroni correction, after the row (probe) -wise BH correction? All pointers appreciated, Regards, Jon Manning -- Dr Jonathan Manning Bioinformatics Team Centre for Cardiovascular Science University of Edinburgh Queens Medical Research Institute 47 Little France Crescent Edinburgh EH16 4TJ United Kingdom T: +44 131 242 6700 F: +44 131 242 6782 E: jmanning at staffmail.ed.ac.uk The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.