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Refitting diploid region profiles using a clustering procedure

Bioconductor version: Release (3.19)

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.

Author: Andrea Poletti [aut], Gaia Mazzocchetti [aut, cre], Vincenza Solli [aut]

Maintainer: Gaia Mazzocchetti <bioinformatic.seragnoli at>

Citation (from within R, enter citation("BOBaFIT")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Data preparation using TCGA-BRCA database.Rmd HTML R Script
Reference Manual PDF


biocViews Clustering, CopyNumberVariation, Normalization, Software, Visualization
Version 1.8.0
In Bioconductor since BioC 3.15 (R-4.2) (2 years)
License GPL (>= 3)
Depends R (>= 2.10)
Imports dplyr, NbClust, ggplot2, ggbio, grDevices, stats, tidyr, GenomicRanges, ggforce, stringr, plyranges, methods, utils, magrittr
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Suggests rmarkdown, markdown, BiocStyle, knitr, testthat (>= 3.0.0), utils, testthat
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Follow Installation instructions to use this package in your R session.

Source Package BOBaFIT_1.8.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) BOBaFIT_1.8.0.tgz
macOS Binary (arm64) BOBaFIT_1.8.0.tgz
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Source Repository (Developer Access) git clone
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