This is the repository of the code used in R package "BOBaFIT", published in Bioconductor Release (3.18).
See BIOCONDUCTOR page for installation, documentation and details: https://www.bioconductor.org/packages/release/bioc/html/BOBaFIT.html
This package provides a method to refit and correct the diploid region in copy number profiles. It uses a clustering algorithm to identify pathology-specific normal (diploid) chromosomes and then use their copy number signal to refit the whole profile. The package is composed by three functions: DRrefit (the main function), ComputeNormalChromosome and PlotCluster.
Mazzocchetti, G., Poletti, A., Solli, V., Borsi, E., Martello, M., Vigliotta, I., ... & Terragna, C. (2022). BoBafit: A copy number clustering tool designed to refit and recalibrate the baseline region of tumors’ profiles. Computational and Structural Biotechnology Journal, 20, 3718-3728. DOI: https://doi.org/10.1016/j.csbj.2022.06.062