GA4GHshiny
This is the development version of GA4GHshiny; for the stable release version, see GA4GHshiny.
Shiny application for interacting with GA4GH-based data servers
Bioconductor version: Development (3.24)
GA4GHshiny package provides an easy way to interact with data servers based on Global Alliance for Genomics and Health (GA4GH) genomics API through a Shiny application. It also integrates with Beacon Network.
Author: Welliton Souza [aut, cre], Benilton Carvalho [ctb], Cristiane Rocha [ctb], Elizabeth Borgognoni [ctb]
Maintainer: Welliton Souza <well309 at gmail.com>
citation("GA4GHshiny")):
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")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("GA4GHshiny")
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("GA4GHshiny")| GA4GHshiny | HTML | R Script |
| Reference Manual |
Details
| biocViews | GUI, Software |
| Version | 1.35.0 |
| In Bioconductor since | BioC 3.6 (R-3.4) (9 years) |
| License | GPL-3 |
| Depends | GA4GHclient |
| Imports | AnnotationDbi, BiocGenerics, dplyr, DT, Seqinfo, GenomeInfoDb, openxlsx, GenomicFeatures, methods, purrr, S4Vectors, shiny, shinyjs, tidyr, shinythemes |
| System Requirements | |
| URL | https://github.com/labbcb/GA4GHshiny |
| Bug Reports | https://github.com/labbcb/GA4GHshiny/issues |
See More
| Suggests | BiocStyle, org.Hs.eg.db, knitr, rmarkdown, testthat, TxDb.Hsapiens.UCSC.hg19.knownGene |
| 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 | GA4GHshiny_1.35.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | GA4GHshiny_1.35.0.tgz |
| macOS Binary (sonoma-arm64) | GA4GHshiny_1.35.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/GA4GHshiny |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/GA4GHshiny |
| Bioc Package Browser | https://code.bioconductor.org/browse/GA4GHshiny/ |
| Package Short Url | https://bioconductor.org/packages/GA4GHshiny/ |
| Package Downloads Report | Download Stats |