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.

### Description

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.

### Usage

    get450K(disease, basedir="./Data",filter=0.2, genome = "hg38")

### Arguments

`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)

### Value

Download all DNA methylation from HM450K level 3 data for the specified disease.

[Package ELMER version 2.14.0 Index]