AnVILWorkflow

This is the released version of AnVILWorkflow; for the devel version, see AnVILWorkflow.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17

Run workflows implemented in Terra/AnVIL workspace

Bioconductor version: Release (3.23)

The AnVIL is a cloud computing resource developed in part by the National Human Genome Research Institute. The main cloud-based genomics platform deported by the AnVIL project is Terra. The AnVILWorkflow package allows remote access to Terra implemented workflows, enabling end-user to utilize Terra/ AnVIL provided resources - such as data, workflows, and flexible/scalble computing resources - through the conventional R functions.

Author: Sehyun Oh [aut, cre] ORCID: 0000-0002-9490-3061 , Marcel Ramos [ctb] ORCID: 0000-0002-3242-0582 , Kai Gravel-Pucillo [aut]

Maintainer: Sehyun Oh <shbrief at gmail.com>

Citation (from within R, enter citation("AnVILWorkflow")):

Sehyun Oh, Kai Gravel-Pucillo. AnVILWorkflow: Run workflows implemented in Terra/AnVIL workspace. doi:10.18129/B9.bioc.AnVILWorkflow, R package version 1.12.1, https://bioconductor.org/packages/AnVILWorkflow.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("AnVILWorkflow")

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("AnVILWorkflow")

Quickstart - RNAseq analysis using salmon	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Infrastructure, Software
Version	1.12.1
In Bioconductor since	BioC 3.17 (R-4.3) (3.5 years)
License	Artistic-2.0
Depends	R (>= 4.4.0), AnVILGCP, AnVILBase, httr
Imports	AnVIL, GCPtools, dplyr, jsonlite, rlang, tibble, tidyr, utils, methods, plyr, stringr
System Requirements
URL	https://github.com/shbrief/AnVILWorkflow
Bug Reports	https://github.com/shbrief/AnVILWorkflow/issues

Suggests	knitr, rmarkdown, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	AnVILWorkflow_1.12.1.tar.gz
Windows Binary (x86_64)	AnVILWorkflow_1.12.1.zip
macOS Binary (big-sur-x86_64)	AnVILWorkflow_1.12.1.tgz
macOS Binary (sonoma-arm64)	AnVILWorkflow_1.12.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/AnVILWorkflow
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/AnVILWorkflow
Package Short Url	https://bioconductor.org/packages/AnVILWorkflow/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.23	Source Archive