GGBase
infrastructure for genetics of gene expression (c) 2008 VJ Carey
Bioconductor version: 2.9
infrastructure for dealing with hapmap SNP reports, GWAS, etc.
Author: Vince Carey <stvjc at channing.harvard.edu>
Maintainer: Vince Carey <stvjc at channing.harvard.edu>
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("GGBase")
To cite this package in a publication, start R and enter:
citation("GGBase")
Documentation
| R Script | GGBase overview | |
| R Script | smlSet construction overview | |
| R Script | snp location metadata overview | |
| Reference Manual |
Details
| biocViews | SNP, GeneticVariability, Genetics, Bioinformatics |
| Depends | R (>= 2.13.0), methods, Biobase(>= 2.13.0), snpStats(>= 1.1.10), RSQLite, genefilter |
| Imports | AnnotationDbi |
| Suggests | illuminaHumanv1.db, SNPlocs.Hsapiens.dbSNP.20090506 |
| System Requirements | |
| License | Artistic-2.0 |
| URL | |
| Depends On Me | ceu1kg, ceuhm3, encoDnaseI, GGdata, GGtools, hmyriB36 |
| Imports Me | |
| Suggests Me | ind1KG |
| Version | 3.14.0 |
| Since | Bioconductor 2.2 (R-2.7) |
Package Downloads
| Package Source | GGBase_3.14.0.tar.gz |
| Windows Binary | GGBase_3.14.0.zip (32- & 64-bit) |
| MacOS 10.5 (Leopard) binary | GGBase_3.14.0.tgz |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Annotation
- Variants
- Flow Cytometry and other assays
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