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nhejazi / biotmle

:package: :microscope: R/biotmle: Targeted Learning with Moderated Statistics for Biomarker Discovery
https://code.nimahejazi.org/biotmle/
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Error in eif #62

Closed dcpattie closed 5 years ago

dcpattie commented 5 years ago

I don't think this is a dealbreaker but I did come across the following error:

head(eif(rnaseqTMLEout)$E[, seq_len(6)]) Error in eif(rnaseqTMLEout) : could not find function "eif"

nhejazi commented 5 years ago

This problem arises due to the same reason explained in #63 --- that is, v1.7.2 of biotmle on GitHub master exports several accessor functions (for convenience) that are not available in v1.6.0 of biotmle currently available from the Bioconductor 3.8 release. These will be available upon the release of Bioconductor 3.9 in April/May 2019; however, for now, they will remain only available via the development version of biotmle available on the branch master. Note that eif accessor function is defined simply as a call to the tmleOut slot of a bioTMLE object (see here). To extract the same information with your current version of biotmle, please use

head(rnaseqTMLEout@tmleOut$E[, seq_len(6)])

Feel free to re-open this issue if this does not resolve your issue. Hope this helps.