get450K {ELMER} | R Documentation |
get450K to download HM40K DNA methylation data for certain cancer types from TCGA website. @description get450K is a function to download latest version of HM450K DNA methylation for all samples of certain cancer types from GDC website.
get450K(disease, basedir="./Data",filter=0.2, genome = "hg38")
disease |
A character specifies the disease to download from TCGA such as BLCA |
basedir |
A path. Shows where the data will be stored. |
filter |
For each probe, the percentage of NA among the all the samples should smaller than filter. |
genome |
Data aligned against which genome of reference. Options: "hg19", "hg38" (default) |
Download all DNA methylation from HM450K level 3 data for the specified disease.