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waldronlab / curatedTCGAData

Curated Data From The Cancer Genome Atlas (TCGA) as MultiAssayExperiment Objects
https://bioconductor.org/packages/curatedTCGAData
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two BRCA methylation datasets? #22

Closed lwaldron closed 5 years ago

lwaldron commented 5 years ago

Why are there BRCA_Methylation1 and BRCA_Methylation2? Presumably it's because these datasets are large, but when moving to HDF5 there's no reason to have them separate. (excerpted below)

> library(curatedTCGAData) 
> curatedTCGAData("BRCA")                                  
                         BRCA_Methylation1 
"BRCA_Methylation_methyl27-20160128.rda" 

                           BRCA_Methylation2
   "BRCA_Methylation_methyl450-20160128.rda"
lwaldron commented 5 years ago

Sorry, I remember that these should get joined upon MAE serialization. I'm in the process of doing that, will close the issue as soon as I see they are joined.

LiNk-NY commented 5 years ago

Hi Levi, @lwaldron These are two different methylation assays with the 27K and 450K target regions.