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SnapATAC Signac ArchR scATAC-seq

2.7 years ago Bogdan ▴ 670

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Comment: conumee with Infinium MethylationEPIC v2.0 by fraober • 0

i also have the same issue, if anyone managed to find a solution it would be great if you could share it! (EPICv2 samples + conumee2 (not c…

Comment: Conumee with EPICv2 Segment function by fraober • 0

i also have the same issue, if anyone managed to find a solution it would be great if you could share it! (EPICv2 samples + conumee2 (not c…

Comment: txdb.mmusculus.ucsc.mm10.knowngene issue on X chromosome by bernatgel ▴ 150

James is right, it is using "hg19" if no genome is specified. The other regions probably worked because they are also correct on the human …

Comment: txdb.mmusculus.ucsc.mm10.knowngene issue on X chromosome by remi-xavier.coux • 0

thanks for the reply. plotKaryotype works fine with other mm10 regions, this specific part of X chromosome seems to be the issue.

Comment: ChAMP analysis Error: Meth Matrix and UnMeth Matrix seems not paried correctly A by nereaherrera23 • 0

Hello, I am stuck in the same error (meth and unmeth dont pair correctly), did you solved the issue? Thank you Nerea

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Answer: bioconductor packages on bioconda

Filtering low variance genes for WGCNA

A: Filtering low variance genes for WGCNA

Answer: bioconductor packages on bioconda

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