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To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("ENVISIONQuery")
In most cases, you don't need to download the package archive at all.
ENVISIONQuery
Retrieval from the ENVISION bioinformatics data portal into R
Bioconductor version: 3.0
Tools to retrieve data from ENVISION, the Database for Annotation, Visualization and Integrated Discovery portal
Author: Alex Lisovich, Roger Day
Maintainer: Alex Lisovich <all67 at pitt.edu>, Roger Day <day01 at pitt.edu>
Citation (from within R,
enter citation("ENVISIONQuery")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("ENVISIONQuery")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ENVISIONQuery")
| R Script | An R Package for retrieving data from EnVision into R objects. | |
| Reference Manual |
Details
| biocViews | Annotation, Software |
| Version | 1.14.0 |
| In Bioconductor since | BioC 2.8 (R-2.13) |
| License | GPL-2 |
| Depends | rJava, XML, utils |
| Imports | |
| LinkingTo | |
| Suggests | |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | IdMappingRetrieval |
| Imports Me | IdMappingRetrieval |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | ENVISIONQuery_1.14.0.tar.gz |
| Windows Binary | ENVISIONQuery_1.14.0.zip |
| Mac OS X 10.6 (Snow Leopard) | ENVISIONQuery_1.14.0.tgz |
| Mac OS X 10.9 (Mavericks) | ENVISIONQuery_1.14.0.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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