Scripts used in bioinformatics analysis for the Clingen-FVG project. Scripts created by Fabio Marroni and Stefano Pezzella during the work for Stefano's Master Thesis entitled: "Whole genome sequencing per la ricerca di mutazioni somatiche di interesse clinico per il tumore della mammella: il progetto CLINGEN-FVG". We gratefully acknowledge the collaboration of Alessandra Viel, Giulia Cini and Anastasia Dell'Elice (CRO di Aviano), and of Emanuele De Paoli (Università di Udine).
In the TMB folder you will find a simple R function and a toy example to compute Tumor Mutational Burden. To play with the function and the example file, just download them to the same directory and, in R, type source("TMB.r"). This will create an R object, named TMB, in which the value of TMB will be stored.