Perl and R tool to combine functional predictions from SIFT, PolyPhen-2 and Xvar
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pred-databases
scripts
.gitignore
01_cleanandsplit.sh
01_cleanandsplit_tumor.sh
02_func-preds.sh
03_collapse.sh
03_collapse_tumor.sh
04_postMUT.sh
04_postMUT_tumor.sh
DESCRIPTION
EXAMPLE.txt
INSTALL.txt
README.md

README.md

postMUT

postMUT (posterior probability of a given mutation being deleterious) is a tool written in Perl and R which combines the functional predictions from the in silico algorithms SIFT, PolyPhen-2 and Xvar to provide a POSTerior probability of a given MUTation being deleterious. This tool requires the installation of the pre-computed predictions from the in silico algorithms. This tool will extract all missense mutations from a given VCF file, extract the functional predictions from SIFT, PolyPhen-2 and Xvar, and compute the postMUT posterior probability for each mutation that has a prediction from all three in silico algorithms.

For help with postMUT, there is an EXAMPLE provided in the directory.

Installation

See the INSTALL file for installation instructions.