metaboGSE: Gene Set Enrichment Analysis via Integration of Metabolic Networks and RNA-Seq Data

Integrates metabolic networks and RNA-seq data to construct condition-specific series of metabolic sub-networks and applies to gene set enrichment analysis (Tran et al. (2018) <doi:10.1093/bioinformatics/bty929>).

Version: 1.2.3
Depends: R (≥ 3.4.0), sybil (≥ 2.0.4), ape (≥ 3.3)
Imports: utils, stats, methods, parallel, grDevices, graphics, Matrix, AnnotationDbi (≥ 1.32.3), GO.db (≥ 3.2.2)
Suggests: glpkAPI (≥ 1.3.0), clpAPI (≥ 1.2.7), topGO (≥ 2.24.0), unix, KernSmooth, KEGGREST, survival, ctc, knitr, rmarkdown
Published: 2020-01-07
Author: Van Du T. Tran [aut, cre], Marco Pagni [aut]
Maintainer: Van Du T. Tran <thuong.tran at sib.swiss>
License: GPL-3
NeedsCompilation: no
Citation: metaboGSE citation info
Materials: NEWS
CRAN checks: metaboGSE results

Downloads:

Reference manual: metaboGSE.pdf
Vignettes: metaboGSE - integrating RNA-seq data and metabolic networks
Package source: metaboGSE_1.2.3.tar.gz
Windows binaries: r-devel: metaboGSE_1.2.3.zip, r-devel-gcc8: metaboGSE_1.2.3.zip, r-release: metaboGSE_1.2.3.zip, r-oldrel: metaboGSE_1.2.3.zip
OS X binaries: r-release: not available, r-oldrel: metaboGSE_1.2.3.tgz
Old sources: metaboGSE archive

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