knitr::opts_chunk$set(collapse = TRUE, comment = '#>')
This vignette describes how to prepare the data to run a gene expression meta-analysis of lung cancer subtypes according to the method of Hughey and Butte (2015). You will need an internet connection to download the expression data and the custom cdf packages.
After completing the steps in this vignette, you can move on to run the meta-analysis described at vignette('run_example')
.
The meta-analysis will use data from the following four studies:
r
metapredict::installCustomCdfPackages(
c('hgu95av2hsentrezgcdf', 'hgu133plus2hsentrezgcdf'))
metapredict_example
. Inside metapredict_example
, create a folder called expression_data
. Inside expression_data
, create a folder called Bhattacharjee
.Bhattacharjee
folder.GSE11969_series_matrix.txt.gz
and GSE29016_series_matrix.txt.gz
to the expression_data
folder.GSE30219_RAW.tar
, rename the resulting folder GSE30219
, and move it to the expression_data
folder.Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.