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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("metagenomeFeatures")
In most cases, you don't need to download the package archive at all.
metagenomeFeatures
|
This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see metagenomeFeatures.
Exploration of marker-gene sequence taxonomic annotations
Bioconductor version: 3.4
metagenomeFeatures was developed for use in exploring the taxonomic annotations for a marker-gene metagenomic sequence dataset. The package can be used to explore the taxonomic composition of a marker-gene database or annotated sequences from a marker-gene metagenome experiment.
Author: Nathan D. Olson, Joseph Nathaniel Paulson, Hector Corrada Bravo
Maintainer: Nathan D. Olson <nolson at umiacs.umd.edu>
Citation (from within R,
enter citation("metagenomeFeatures")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("metagenomeFeatures")
Documentation
| HTML | R Script | Example 16S Annotation Workflow |
| HTML | R Script | Vignette Title |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Annotation, Infrastructure, Metagenomics, Microbiome, Sequencing, Software |
| Version | 1.4.0 |
| In Bioconductor since | BioC 3.2 (R-3.2) (1.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.3), Biobase(>= 2.17.8) |
| Imports | Biostrings(>= 2.36.4), ShortRead(>= 1.26.0), dplyr (>= 0.4.3), stringr (>= 1.0.0), lazyeval (>= 0.1.10), RSQLite (>= 1.0.0), magrittr (>= 1.5), methods (>= 3.3.1), lattice (>= 0.20.33), metagenomeSeq(>= 1.14.2), ape (>= 3.5), purrr (>= 0.2.2) |
| LinkingTo | |
| Suggests | knitr (>= 1.11), msd16s(>= 0.102.0), testthat (>= 0.10.0), rmarkdown |
| SystemRequirements | |
| Enhances | |
| URL | https://github.com/HCBravoLab/metagenomeFeatures |
| BugReports | https://github.com/HCBravoLab/metagenomeFeatures/issues |
| Depends On Me | |
| Imports Me | greengenes13.5MgDb |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | metagenomeFeatures_1.4.0.tar.gz |
| Windows Binary | metagenomeFeatures_1.4.0.zip |
| Mac OS X 10.9 (Mavericks) | metagenomeFeatures_1.4.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/metagenomeFeatures/tree/release-3.4 |
| Package Short Url | http://bioconductor.org/packages/metagenomeFeatures/ |
| Package Downloads Report | Download Stats |
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