AnVIL
This is the development version of AnVIL; for the stable release version, see AnVIL.
Bioconductor on the AnVIL compute environment
Bioconductor version: Development (3.22)
The AnVIL is a cloud computing resource developed in part by the National Human Genome Research Institute. The AnVIL package provides end-user and developer functionality. For the end-user, AnVIL provides fast binary package installation, utitlities for working with Terra / AnVIL table and data resources, and convenient functions for file movement to and from Google cloud storage. For developers, AnVIL provides programatic access to the Terra, Leonardo, Rawls, and Dockstore RESTful programming interface, including helper functions to transform JSON responses to formats more amenable to manipulation in R.
Author: Marcel Ramos [aut, cre]
, Martin Morgan [aut]
, Kayla Interdonato [aut], Yubo Cheng [aut], Nitesh Turaga [aut], BJ Stubbs [ctb], Vincent Carey [ctb], Sehyun Oh [ctb], Sweta Gopaulakrishnan [ctb], Valerie Obenchain [ctb]
Maintainer: Marcel Ramos <marcel.ramos at sph.cuny.edu>
citation("AnVIL")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("AnVIL")
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("AnVIL")| Dockstore and Bioconductor for AnVIL | HTML | R Script |
| Introduction to the AnVIL package | HTML | R Script |
| Running an AnVIL workflow within R | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Infrastructure, Software |
| Version | 1.21.3 |
| In Bioconductor since | BioC 3.11 (R-4.0) (5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.5.0), dplyr, AnVILBase |
| Imports | stats, utils, methods, futile.logger, jsonlite, httr, rapiclient, yaml, tibble, shiny, DT, miniUI, htmltools, BiocBaseUtils |
| System Requirements | |
| URL |
See More
| Suggests | knitr, rmarkdown, testthat, withr, readr, BiocStyle, devtools, AnVILAz, AnVILGCP, lifecycle |
| Linking To | |
| Enhances | |
| Depends On Me | cBioPortalData |
| Imports Me | AnVILPublish, AnVILWorkflow, bedbaser, terraTCGAdata |
| Suggests Me | AnVILBase, AnVILGCP |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | AnVIL_1.21.3.tar.gz |
| Windows Binary (x86_64) | AnVIL_1.21.3.zip |
| macOS Binary (x86_64) | AnVIL_1.21.3.tgz |
| macOS Binary (arm64) | AnVIL_1.21.3.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/AnVIL |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/AnVIL |
| Bioc Package Browser | https://code.bioconductor.org/browse/AnVIL/ |
| Package Short Url | https://bioconductor.org/packages/AnVIL/ |
| Package Downloads Report | Download Stats |