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To install this package, start R and enter:
## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("pwOmics")
In most cases, you don't need to download the package archive at all.
pwOmics
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Pathway-based data integration of omics data
Bioconductor version: Release (3.1)
pwOmics performs pathway-based level-specific data comparison of matching omics data sets based on pre-analysed user-specified lists of differential genes/transcripts and proteins. A separate downstream analysis of proteomic data including pathway identification and enrichment analysis, transcription factor identification and target gene identification is opposed to the upstream analysis starting with gene or transcript information as basis for identification of upstream transcription factors and regulators. The cross-platform comparative analysis allows for comprehensive analysis of single time point experiments and time-series experiments by providing static and dynamic analysis tools for data integration.
Author: Astrid Wachter <Astrid.Wachter at med.uni-goettingen.de>
Maintainer: Astrid Wachter <Astrid.Wachter at med.uni-goettingen.de>
Citation (from within R,
enter citation("pwOmics")):
Installation
To install this package, start R and enter:
## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("pwOmics")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("pwOmics")
| R Script | pwOmics | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | GeneTarget, Software, SystemsBiology, Transcription |
| Version | 1.1.8 |
| In Bioconductor since | BioC 3.1 (R-3.2) (< 6 months) |
| License | GPL (>= 2) |
| Depends | R (>= 3.2) |
| Imports | data.table, rBiopaxParser, igraph, STRINGdb, graphics, gplots, Biobase, BiocGenerics, AnnotationDbi, biomaRt, AnnotationHub, GenomicRanges |
| LinkingTo | |
| Suggests | ebdbNet, longitudinal, Mfuzz |
| 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 | pwOmics_1.1.8.tar.gz |
| Windows Binary | pwOmics_1.0.2.zip |
| Mac OS X 10.6 (Snow Leopard) | pwOmics_1.1.8.tgz |
| Mac OS X 10.9 (Mavericks) | pwOmics_1.1.8.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/pwOmics/tree/release-3.1 |
| Package Short Url | http://bioconductor.org/packages/pwOmics/ |
| Package Downloads Report | Download Stats |
Documentation »
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