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This article mainly introduces "how to use pRRophetic package". In daily operation, I believe many people have doubts about how to use pRRophetic package. The editor consulted all kinds of materials and sorted out simple and easy-to-use operation methods. I hope it will be helpful for you to answer the doubts about "how to use pRRophetic package". Next, please follow the editor to study!

Prediction of drug sensitivity by pRRophetic package

PRRophetic package is an ancient R package, which is mainly used to predict phenotype from gene expression data (that is, to use cancer genome project CGP cell line data to predict clinical outcomes), to predict the drug sensitivity of outer cell lines (CCLE), and to predict clinical data.

This package cannot be installed directly in Rstudio and needs to be imported into R after an external download of the package. The package can be downloaded from http://genemed.uchicago.edu/~pgeeleher/pRRophetic/. After the download is completed, his dependent package must be installed in R first.

BiocManager::install (c ('sva',' car', 'genefilter',' preprocessCore', 'ridge'))

Then run the following command to install the pRRophetic package

Install.packages ("pRRophetic_0.5.tar.gz", repos = NULL, dependencies = TRUE) predicts clinical outcomes from CPG cell lines

The chemotherapy effect was predicted according to the gene expression profile data, the row name in the gene expression profile data was gene name, and the data was matrix matrix.

PredictedType

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