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

fcScan for detecting clusters of coordinates with user defined options

Bioconductor version: Development (3.19)

This package is used to detect combination of genomic coordinates falling within a user defined window size along with user defined overlap between identified neighboring clusters. It can be used for genomic data where the clusters are built on a specific chromosome or specific strand. Clustering can be performed with a "greedy" option allowing thus the presence of additional sites within the allowed window size.

Author: Abdullah El-Kurdi [aut], Ghiwa khalil [aut], Georges Khazen [ctb], Pierre Khoueiry [aut, cre]

Maintainer: Pierre Khoueiry <pk17 at aub.edu.lb> Abdullah El-Kurdi <ak161 at aub.edu.lb>

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


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:

fcScan HTML R Script
Reference Manual PDF


biocViews Clustering, GenomeAnnotation, Software
Version 1.17.0
In Bioconductor since BioC 3.10 (R-3.6) (4.5 years)
License Artistic-2.0
Imports stats, plyr, VariantAnnotation, SummarizedExperiment, rtracklayer, GenomicRanges, methods, IRanges, foreach, doParallel, parallel
System Requirements
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Suggests RUnit, BiocGenerics, BiocStyle, knitr, rmarkdown
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Follow Installation instructions to use this package in your R session.

Source Package fcScan_1.17.0.tar.gz
Windows Binary fcScan_1.17.0.zip
macOS Binary (x86_64) fcScan_1.17.0.tgz
macOS Binary (arm64) fcScan_1.17.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/fcScan
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/fcScan
Bioc Package Browser https://code.bioconductor.org/browse/fcScan/
Package Short Url https://bioconductor.org/packages/fcScan/
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