frankRuehle/systemsbio: Streamlined Analysis and Integration of Systems Biology Data
Version 0.1.0

Tools for for analysis and integration of different kinds of omics- data. Currently implemented methods refer to gene expression data. Illumina microarray data or custom microarray data are loaded into an Expressionet object and are normalised and QC-controlled. Limma package is used for differential expression analysis of all indicated group comparisons. Differential expressed genes are analysed for enriched GO terms, KEGG pathways and transcription factor binding sites using clusterProfiler and PWMEnrich. Principal component analysis and whole genome coexpression network analysis is performed using WGCNA and pcaGoPromoter packages. Methods for methylation analysis, GWAS and QTL analyses will be added soon.

Getting started

Package details

AuthorFrank Ruehle [aut, cre]
MaintainerFrank Ruehle <[email protected]>
LicenseGPL-3
Version0.1.0
URL https://github.com/frankRuehle/systemsbio.git
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("devtools")
library(devtools)
install_github("frankRuehle/systemsbio")
frankRuehle/systemsbio documentation built on Sept. 29, 2017, 4:35 a.m.