Open prasundutta87 opened 4 years ago
Hi, On checking the annotation using annotation() function for my object created using several IDAT files, I got this information-
array annotation "IlluminaHumanMethylationEPIC" "ilm10b4.hg19"
I can clearly see that the annotation is "ilm10b4.hg19".
However, while using ChAMP, the program is automatically choosing IlluminaMethylationManifest is based on the array design for Illumina’s Human Methylation EPIC microarray and on the v1.0b2 version of the manifest file (http://bioconductor.org/packages/release/data/annotation/html/IlluminaHumanMethylationEPICmanifest.html).
How can I make sure that the function chooses the correct manifest and its associated manifest? The R package of the correct annotation is also present in Bioconductor in this link-http://bioconductor.org/packages/release/data/annotation/html/IlluminaHumanMethylationEPICanno.ilm10b4.hg19.html.
Regards, Prasun
Hi, On checking the annotation using annotation() function for my object created using several IDAT files, I got this information-
array annotation "IlluminaHumanMethylationEPIC" "ilm10b4.hg19"
I can clearly see that the annotation is "ilm10b4.hg19".
However, while using ChAMP, the program is automatically choosing IlluminaMethylationManifest is based on the array design for Illumina’s Human Methylation EPIC microarray and on the v1.0b2 version of the manifest file (http://bioconductor.org/packages/release/data/annotation/html/IlluminaHumanMethylationEPICmanifest.html).
How can I make sure that the function chooses the correct manifest and its associated manifest? The R package of the correct annotation is also present in Bioconductor in this link-http://bioconductor.org/packages/release/data/annotation/html/IlluminaHumanMethylationEPICanno.ilm10b4.hg19.html.
Regards, Prasun