search

zwdzwd / sesame

🍪 SEnsible Step-wise Analysis of DNA MEthylation BeadChips
Other
61 stars 32 forks source link

Could not find inferPlatformFromProbeIDs function #65

Open jtxyz16 opened 2 years ago

jtxyz16 commented 2 years ago

betas = openSesame(sdfs, platform = "MM285", prep = "TQCDPB", manifest = mft) Error: BiocParallebetas = openSesame(sdfs, platform = "MM285", prep = "TQCDPB", manifest = mft) Error: BiocParallel errors 1 remote errors, element index: 1 14 unevaluated and other errors first remote error: could not find function "inferPlatformFromProbeIDs"l errors 1 remote errors, element index: 1 14 unevaluated and other errors first remote error: could not find function "inferPlatformFromProbeIDs"

zwdzwd commented 2 years ago

inferPlatformFromProbeIDs is in the updated sesameData package which sesame depends on. Please update and see if problem persist

jtxyz16 commented 2 years ago

Thank you for the speedy reply. It's fixed now. I have another issue. I want to use SigDFsToRGSet, for downstream usage in compartmap (https://rdrr.io/bioc/compartmap) . But I'm having this error. Can you help me convert the SeSame file into an rgSet? I'm processing mouse data.

Error in platformSmToMinfi(pt) : plf %in% c("IlluminaHumanMethylationEPIC", "IlluminaHumanMethylation450k", .... is not TRUE

zwdzwd commented 2 years ago

Yeah, I am not sure the mouse manifest for minfi is around yet. but I can add that if there is one.