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

Get inversion status in predefined regions

Bioconductor version: Development (3.20)

scoreInvHap can get the samples' inversion status of known inversions. scoreInvHap uses SNP data as input and requires the following information about the inversion: genotype frequencies in the different haplotypes, R2 between the region SNPs and inversion status and heterozygote genotypes in the reference. The package include this data for 21 inversions.

Author: Carlos Ruiz [aut], Dolors Pelegrí [aut], Juan R. Gonzalez [aut, cre]

Maintainer: Dolors Pelegri-Siso <dolors.pelegri at>

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


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:

Inversion genotyping with scoreInvHap HTML R Script
Reference Manual PDF


biocViews Genetics, GenomicVariation, SNP, Software
Version 1.27.0
In Bioconductor since BioC 3.6 (R-3.4) (6.5 years)
License file LICENSE
Depends R (>= 3.6.0)
Imports Biostrings, methods, snpStats, VariantAnnotation, GenomicRanges, BiocParallel, graphics, SummarizedExperiment
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Suggests testthat, knitr, BiocStyle, rmarkdown
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Follow Installation instructions to use this package in your R session.

Source Package scoreInvHap_1.27.0.tar.gz
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macOS Binary (x86_64) scoreInvHap_1.27.0.tgz
macOS Binary (arm64) scoreInvHap_1.27.0.tgz
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