To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("plethy")
In most cases, you don't need to download the package archive at all.
plethy
R framework for exploration and analysis of respirometry data
Bioconductor version: 3.0
This package provides the infrastructure and tools to import, query and perform basic analysis of whole body plethysmography and metabolism data. Currently support is limited to data derived from Buxco respirometry instruments as exported by their FinePointe software.
Author: Daniel Bottomly [aut, cre], Marty Ferris [ctb], Beth Wilmot [aut], Shannon McWeeney [aut]
Maintainer: Daniel Bottomly <bottomly at ohsu.edu>
Citation (from within R,
enter citation("plethy")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("plethy")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("plethy")
| R Script | plethy | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | DataImport, DataRepresentation, Infastructure, Software, TimeCourse, biocViews |
| Version | 1.4.3 |
| In Bioconductor since | BioC 2.13 (R-3.0) |
| License | GPL-3 |
| Depends | R (>= 3.1.0), methods, BiocGenerics, S4Vectors |
| Imports | Streamer, DBI, RSQLite (>= 1.0.0), IRanges, reshape2, plyr, RColorBrewer, ggplot2 |
| LinkingTo | |
| Suggests | RUnit, BiocStyle |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | plethy_1.4.3.tar.gz |
| Windows Binary | plethy_1.4.3.zip |
| Mac OS X 10.6 (Snow Leopard) | plethy_1.4.3.tgz |
| Mac OS X 10.9 (Mavericks) | plethy_1.4.3.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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