To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("manta")
In most cases, you don't need to download the package archive at all.
manta
Microbial Assemblage Normalized Transcript Analysis
Bioconductor version: 3.0
Tools for robust comparative metatranscriptomics.
Author: Ginger Armbrust, Adrian Marchetti
Maintainer: Chris Berthiaume <chrisbee at uw.edu>, Adrian Marchetti <amarchetti at unc.edu>
Citation (from within R,
enter citation("manta")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("manta")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("manta")
| R Script | manta | |
| Reference Manual | ||
| Text | NEWS | |
| Text | LICENSE |
Details
| biocViews | DataImport, DifferentialExpression, GeneExpression, Genetics, QualityControl, RNASeq, Sequencing, Software, Visualization |
| Version | 1.12.0 |
| In Bioconductor since | BioC 2.10 (R-2.15) |
| License | Artistic-2.0 |
| Depends | R (>= 1.8.0), methods, edgeR(>= 2.5.13) |
| Imports | Hmisc, caroline (>= 0.6.6) |
| LinkingTo | |
| Suggests | RSQLite, plotrix |
| SystemRequirements | |
| Enhances | |
| URL | http://manta.ocean.washington.edu/ |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | manta_1.12.0.tar.gz |
| Windows Binary | manta_1.12.0.zip |
| Mac OS X 10.6 (Snow Leopard) | manta_1.12.0.tgz |
| Mac OS X 10.9 (Mavericks) | manta_1.12.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
- RNA-Seq workflow: gene-level exploratory analysis and differential expression
- Changing genomic coordinate systems with rtracklayer::liftOver
- Mass spectrometry and proteomics data analysis
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