scoreInvHap
Get inversion status in predefined regions
Bioconductor version: 3.23 · Package version: 1.34.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("scoreInvHap")Details
| Maintainer | Dolors Pelegri-Siso <dolors.pelegri@isglobal.org> |
| Author | Carlos Ruiz [aut], Dolors Pelegrà [aut], Juan R. Gonzalez [aut, cre] |
| License | file LICENSE |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | Genetics, GenomicVariation, SNP, Software |
| Package Short Url | https://bioconductor.org/packages/scoreInvHap/ |
Citation
From within R, enter citation("scoreInvHap"):
Carlos Ruiz, Dolors PelegrÃ, Juan R. Gonzalez. scoreInvHap: Get inversion status in predefined regions. doi:10.18129/B9.bioc.scoreInvHap, R package version 1.34.0, https://bioconductor.org/packages/scoreInvHap.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | scoreInvHap_1.34.0.tar.gz |
| Windows binary (x86_64) | scoreInvHap_1.34.0.zip |
| macOS binary (arm64) | scoreInvHap_1.34.0.tgz |
| macOS binary (x86_64) | scoreInvHap_1.34.0.tgz |
Dependencies
Depends: R (>= 3.6.0)
Imports: Biostrings, methods, snpStats, VariantAnnotation, GenomicRanges, BiocParallel, graphics, SummarizedExperiment