get450K: get450K to download HM40K DNA methylation data for certain...
In ELMER: Inferring Regulatory Element Landscapes and Transcription Factor Networks Using Cancer Methylomes
Description
Usage
Arguments
Value
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
1
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.
ELMER documentation built on Nov. 8, 2020, 4:59 p.m.
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Description Usage Arguments Value
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
1 |
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.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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