On Oct 24, 2017 6:14 AM, "Francesco Napolitano" <franap...@gmail.com> wrote:
I'm converting gene expression profiles to "pathway expression profiles" (https://doi.org/10.1093/bioinformatics/btv536), so for each pathway I have an enrichment score and a p-value. I guess it would be like modeling gene expression data where limma-like preprocessing was performed, so you have a fold change - p-value pair for each gene. Isn't there a data model for that? Nice paper, thanks for the link! Could you explain the problem a little more using the terminology of your paper? I see your enrichment values matrix (fig 1c *ES*ij) of pathways x cell lines, and imagine additional associated matrices of p-values and ranks, but where do assays with different rows come in? [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
