To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("HELP")
In most cases, you don't need to download the package archive at all.
HELP
Tools for HELP data analysis
Bioconductor version: 3.0
The package contains a modular pipeline for analysis of HELP microarray data, and includes graphical and mathematical tools with more general applications
Author: Reid F. Thompson <rthompso at aecom.yu.edu>, John M. Greally <jgreally at aecom.yu.edu>, with contributions from Mark Reimers <mreimers at vcu.edu>
Maintainer: Reid F. Thompson <rthompso at aecom.yu.edu>
Citation (from within R,
enter citation("HELP")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("HELP")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("HELP")
| R Script | 1. Primer | |
| Reference Manual |
Details
| biocViews | CpGIsland, DNAMethylation, DataImport, Microarray, Preprocessing, QualityControl, Software, TwoChannel, Visualization |
| Version | 1.24.0 |
| In Bioconductor since | BioC 2.3 (R-2.8) |
| License | GPL (>= 2) |
| Depends | R (>= 2.8.0), stats, graphics, grDevices, Biobase, methods |
| Imports | |
| LinkingTo | |
| Suggests | |
| 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 | HELP_1.24.0.tar.gz |
| Windows Binary | HELP_1.24.0.zip |
| Mac OS X 10.6 (Snow Leopard) | HELP_1.24.0.tgz |
| Mac OS X 10.9 (Mavericks) | HELP_1.24.0.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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