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Question: Error in champ.lasso of ChAMP Bioconductor package for Methylation 450k analysis
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gravatar for junyupub
3.3 years ago by
junyupub0
China
junyupub0 wrote:

I have just installed ChAMP and all of its dependencies for methylation 450k analysis.

I was trying out the tutorial (http://www.bioconductor.org/packages/release/bioc/vignettes/ChAMP/inst/doc/ChAMP.pdf) but got an error.

When running the Probe Lasso DMR Hunter, I encounter "You have found 4161 significant MVPs with a BH adjusted P-value below 0.05 Error in [.data.frame(dmr.beta.means, , 22:24, ) : undefined columns selected"

The error prevents halts the analysis, and I can't replicate what is shown in the above-mentioned tutorial.

I have tried uninstalling and re-installing ChAMP, to no avail...

Any advice and insight will be much appreciated! Thanks in advance!

ADD COMMENTlink modified 3.3 years ago • written 3.3 years ago by junyupub0
0
gravatar for junyupub
3.3 years ago by
junyupub0
China
junyupub0 wrote:

using R 3.1.0, the error can be solved.

ADD COMMENTlink written 3.3 years ago by junyupub0
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