AshkenazimSonChr21
This is the released version of AshkenazimSonChr21; for the devel version, see AshkenazimSonChr21.
Annotated variants on the chromosome 21, human genome 19, Ashkenazim Trio son sample
Bioconductor version: Release (3.23)
SonVariantsChr21 is a dataset of annotated genomic variants coming from Complete Genomics whole genome sequencing. Data comes from GIAB project, Ashkenazim Trio, sample HG002 run 1. Both vcf and annotated data frame are provided.
Author: Tomasz Stokowy
Maintainer: Who to complain to <tomasz.stokowy at k2.uib.no>
citation("AshkenazimSonChr21")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("AshkenazimSonChr21")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("AshkenazimSonChr21")| RareVariantVis | R Script | |
| Reference Manual |
Details
| biocViews | ExperimentData, GenomicVariation, Sequencing, WholeGenome |
| Version | 1.42.0 |
| License | Artistic-2.0 |
| Depends | |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | knitr, VariantAnnotation |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | AshkenazimSonChr21_1.42.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/AshkenazimSonChr21 |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/AshkenazimSonChr21 |
| Package Short Url | https://bioconductor.org/packages/AshkenazimSonChr21/ |
| Package Downloads Report | Download Stats |