scoreInvHap
This is the development version of scoreInvHap; for the stable release version, see scoreInvHap.
Get inversion status in predefined regions
Bioconductor version: Development (3.23)
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 Pelegrà [aut], Juan R. Gonzalez [aut, cre]
Maintainer: Dolors Pelegri-Siso <dolors.pelegri at isglobal.org>
citation("scoreInvHap")):
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("scoreInvHap")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | Genetics, GenomicVariation, SNP, Software |
| Version | 1.31.0 |
| In Bioconductor since | BioC 3.6 (R-3.4) (8 years) |
| License | file LICENSE |
| Depends | R (>= 3.6.0) |
| Imports | Biostrings, methods, snpStats, VariantAnnotation, GenomicRanges, BiocParallel, graphics, SummarizedExperiment |
| System Requirements | |
| URL |
See More
| Suggests | testthat, knitr, BiocStyle, rmarkdown |
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| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/scoreInvHap |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/scoreInvHap |
| Package Short Url | https://bioconductor.org/packages/scoreInvHap/ |
| Package Downloads Report | Download Stats |