- Home
- Bioconductor 3.0
- Software Packages
- OrderedList
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("OrderedList")
In most cases, you don't need to download the package archive at all.
OrderedList
Similarities of Ordered Gene Lists
Bioconductor version: 3.0
Detection of similarities between ordered lists of genes. Thereby, either simple lists can be compared or gene expression data can be used to deduce the lists. Significance of similarities is evaluated by shuffling lists or by resampling in microarray data, respectively.
Author: Xinan Yang, Stefanie Scheid, Claudio Lottaz
Maintainer: Claudio Lottaz <Claudio.Lottaz at klinik.uni-regensburg.de>
Citation (from within R,
enter citation("OrderedList")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("OrderedList")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("OrderedList")
| R Script | Similarities of Ordered Gene Lists | |
| Reference Manual |
Details
| biocViews | DifferentialExpression, Microarray, MultipleComparison, Software |
| Version | 1.38.0 |
| In Bioconductor since | BioC 1.8 (R-2.3) |
| License | GPL (>= 2) |
| Depends | R (>= 2.1.0), Biobase(>= 1.5.12), twilight(>= 1.9.2), methods |
| Imports | Biobase, graphics, methods, stats, twilight |
| LinkingTo | |
| Suggests | |
| SystemRequirements | |
| Enhances | |
| URL | http://compdiag.molgen.mpg.de/software/index.shtml |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | OrderedList_1.38.0.tar.gz |
| Windows Binary | OrderedList_1.38.0.zip |
| Mac OS X 10.6 (Snow Leopard) | OrderedList_1.38.0.tgz |
| Mac OS X 10.9 (Mavericks) | OrderedList_1.38.0.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
Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!
Contact us: support.bioconductor.org
Hosting provided by Fred Hutchinson Cancer Research Center
Copyright © 2003 - 2015, Bioconductor
