Open MANZHAOHUI opened 2 years ago
I am trying to use bump hunter to do DMR analysis against Infinium Mouse Methylation BeadChip Array beta values. To this end, I have to convert the beta value dataframe to GenomicRadioset object using method (https://rdrr.io/bioc/minfi/man/makeGenomicRatioSetFromMatrix.html ) However, the default annotation is IlluminaHumanMethylation450k. I wonder if Infinium Mouse Methylation BeadChip annotation data (https://support.illumina.com/content/dam/illumina-support/documents/downloads/productfiles/mouse-methylation/infinium-mouse-methylation-manifest-file-csv.zip ) is supported by this function. If the answer is yes, would you please give me some advice as to how to use the mouse annotation in makeGenomicRatioSetFromMatrix( ). Thank you very much.
I am trying to use bump hunter to do DMR analysis against Infinium Mouse Methylation BeadChip Array beta values. To this end, I have to convert the beta value dataframe to GenomicRadioset object using method (https://rdrr.io/bioc/minfi/man/makeGenomicRatioSetFromMatrix.html ) However, the default annotation is IlluminaHumanMethylation450k. I wonder if Infinium Mouse Methylation BeadChip annotation data (https://support.illumina.com/content/dam/illumina-support/documents/downloads/productfiles/mouse-methylation/infinium-mouse-methylation-manifest-file-csv.zip ) is supported by this function. If the answer is yes, would you please give me some advice as to how to use the mouse annotation in makeGenomicRatioSetFromMatrix( ). Thank you very much.