parati
Parental Allele Transmission Inference for Trio Genotype Data
Bioconductor version: 3.24 · Package version: 1.1.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
Infers maternal and paternal transmitted and non-transmitted alleles from phased trio genotype data. The package supports SNP-level analyses of genetic nurture and transgenerational effects. It interoperates with Bioconductor VCF infrastructure through support for VariantAnnotation::VCF objects and returns R objects for downstream analysis.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("parati")Details
| Maintainer | Jinyi Che <chejinyi777@gmail.com> |
| Author | Jinyi Che [aut, cre] |
| License | GPL-3 + file LICENSE |
| URL | https://github.com/newche/parati |
| Bug Reports | https://github.com/newche/parati/issues |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Genetics, SNP, Sequencing, Software, VariantAnnotation |
| Package Short Url | https://bioconductor.org/packages/parati/ |
Citation
From within R, enter citation("parati"):
Jinyi Che. parati: Parental Allele Transmission Inference for Trio Genotype Data. doi:10.18129/B9.bioc.parati, R package version 1.1.0, https://bioconductor.org/packages/parati.
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 | parati_1.1.0.tar.gz |
| Windows binary (x86_64) | parati_1.1.0.zip |
| macOS binary (arm64) | parati_1.1.0.tgz |
| macOS binary (x86_64) | parati_1.1.0.tgz |
Dependencies
Imports: data.table, methods, openxlsx, R.utils, vcfR, VariantAnnotation, SummarizedExperiment, BiocGenerics, GenomeInfoDb
Suggests: BiocStyle, knitr, optparse, rmarkdown, testthat (>= 3.0.0), waldo