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Survival Analysis for Protein-Level TCGA Analysis
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ACC.csv
BLCA.csv
BRCA.csv
CESC.csv
CHOL.csv
COAD.csv
CancerDatasets.txt
DLBCL.csv
ESCA.csv
GBM.csv
HNSC.csv
KICH.csv
KIRC.csv
KIRP.csv
LGG.csv
LIHC.csv
LUAD.csv
LUSC.csv
MESO.csv
OV.csv
PAAD.csv
PCPG.csv
PRAD.csv
READ.csv
README.md
SARC.csv
SKCM.csv
STAD.csv
TGCT.csv
THCA.csv
THYM.csv
UCEC.csv
UCS.csv
global.R
server.R
subtype_info.txt
ui.R

README.md

TRGAted

TRGAted is an interactive web application that provides a graphical user interface combining survival information and reverse-phase protein array data from the Cancer Genome Atlas. Cloud-based TRGAted is run using the R Shiny Server see the TRGAted Application.

Citation

TRGAted is provided under a free-of-charge, open-source license (A-GPL3). All we require is that you cite/attribute the following in any work that benefits from this code or application.

The App

If using the TRGAted app or derivative work, please cite our F1000research article: TRGAted: A web tool for survival analysis using protein data in the Cancer Genome Atlas. Link Here.

Running TRGAted as a Local Session

While it is possible to host the server "back end" somewhere so that users only need to point their web browser to a link, it is also possible to launch both the back and front "ends" on your local machine. The server back end will be an R session on your own machine, while the front end is your web browser, pointed to the appropriate local URL.

Make sure that you first have installed the latest version of R.

Download repository and open .R file in R Studio. launch TRGAted App.

TRGAted relies on the following packages, which should be installed if running the code locally.

install.packages("shiny") 
install.packages("ggplots2")
install.packages("broom")
install.packages("survMisc")
install.packages("survminer")
install.packages("shinythemes")
install.packages("DT")
install.packages("dplyr")
install.packages("ggrepel")
install.packages("reshape2")
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