To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("GGdata")
In most cases, you don't need to download the package archive at all.
GGdata
all 90 hapmap CEU samples, 47K expression, 4mm SNP
Bioconductor version: 3.0
data exemplars dealing with hapmap SNP reports, GWAS, etc.
Author: VJ Carey <stvjc at channing.harvard.edu>
Maintainer: VJ Carey <stvjc at channing.harvard.edu>
Citation (from within R,
enter citation("GGdata")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("GGdata")
Documentation
| Reference Manual |
Details
| biocViews | ExperimentData, HapMap |
| Version | 1.3.1 |
| License | LGPL |
| Depends | R (>= 2.12.0), methods, Biobase(>= 2.5.5), GGBase, snpStats, illuminaHumanv1.db, AnnotationDbi |
| Imports | |
| LinkingTo | |
| Suggests | |
| SystemRequirements | |
| Enhances | GGtools |
| URL | |
| Depends On Me | ggtut |
| Imports Me | |
| Suggests Me | crlmm, encoDnaseI, GGtools |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | GGdata_1.3.1.tar.gz |
| Windows Binary | GGdata_1.3.1.zip |
| Mac OS X 10.6 (Snow Leopard) | GGdata_1.3.1.tgz |
| Mac OS X 10.9 (Mavericks) | GGdata_1.3.1.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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