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This is the development version of BOBaFIT; for the stable release version, see BOBaFIT.

Refitting diploid region profiles using a clustering procedure

Bioconductor version: Development (3.20)

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))

# The following initializes usage of Bioc devel


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 1.9.0
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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Source Package BOBaFIT_1.9.0.tar.gz
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macOS Binary (x86_64) BOBaFIT_1.9.0.tgz
macOS Binary (arm64) BOBaFIT_1.9.0.tgz
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