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BioinformaticsFMRP / TCGAbiolinks

TCGAbiolinks
http://bioconductor.org/packages/devel/bioc/vignettes/TCGAbiolinks/inst/doc/index.html
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Error in TCGAanalyze_DEA with limma #540

Open ElizabethCattaneo opened 1 year ago

ElizabethCattaneo commented 1 year ago

Hello. When I excuted TCGAanalyze_DEA(), in pipeline = "limma" this error occurred: Error in limma::makeContrasts(contrasts = contr, levels = design): The levels must by syntactically valid names in R, see help(make.names). I am using my own names in Cond1type and Cond2type. This error doesn’t occur if I use pipeline = “edgeR” How can I fix it? Thanks!

tiagochst commented 1 year ago

Could you send the complete code ?