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source("http://bioconductor.org/biocLite.R")
biocLite("COPDSexualDimorphism")
In most cases, you don't need to download the package archive at all.
COPDSexualDimorphism
Sexual dimorphic and COPD differential analysis for gene expression and methylation.
Bioconductor version: 3.0
Sexual dimoprhic and COPD differential (SDCD) analysis contrasts regression coefficients from two stratified analysis. Stratification can be done in two ways: by COPD status or by sex. For COPD-stratified analysis, SDCD analysis contrasts sexual dimorphism between cases and controls, while sex-stratified SDCD analsysis contrasts COPD differential expression pattern between males and females. The package is meant to be used in conjunction with the package limma.
Author: J Fah Sathirapongsasuti
Maintainer: J Fah Sathirapongsasuti <fah at cs.stanford.edu>
Citation (from within R,
enter citation("COPDSexualDimorphism")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("COPDSexualDimorphism")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("COPDSexualDimorphism")
| R Script | SDCD eQTL | |
| R Script | SDCD Genes | |
| R Script | SDCD Methylation | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | AssayDomain, DNAMethylation, DifferentialExpression, GeneExpression, Microarray, Software |
| Version | 1.2.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) |
| License | LGPL-2.1 |
| Depends | COPDSexualDimorphism.data, NCBI2R, RColorBrewer, beeswarm, limma, GenomicRanges, gplots, gtools |
| 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 | COPDSexualDimorphism_1.2.0.tar.gz |
| Windows Binary | COPDSexualDimorphism_1.2.0.zip |
| Mac OS X 10.6 (Snow Leopard) | COPDSexualDimorphism_1.2.0.tgz |
| Mac OS X 10.9 (Mavericks) | COPDSexualDimorphism_1.2.0.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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