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SetRank

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Permits to eliminate many false positive hits in gene set enrichment analysis (GSEA). SetRank discards gene sets that have initially been flagged as significant, if their significance is only due to the overlap with another gene set. It is a highly specific tool for GSEA. The tool returns either reliable results or no results at all, making it ideally suited for querying multiple gene set databases simultaneously.

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SetRank classification

SetRank specifications

Software type:
Package/Module
Restrictions to use:
None
Output format:
CSV
Programming languages:
R
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes
Interface:
Command line interface
Input data:
A gene set collection or a list of genes.
Operating system:
Unix/Linux, Mac OS, Windows
License:
GNU General Public License version 3.0
Version:
1.1.0
Source code URL:
https://cran.r-project.org/src/contrib/SetRank_1.1.0.tar.gz/

SetRank distribution

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No open topic.

SetRank classification

SetRank specifications

Interface:
Web user interface
Output format:
CSV
Computer skills:
Basic
Input data:
A gene set collection or a list of genes.
License:
GNU General Public License version 3.0
Stability:
Stable

SetRank distribution

download

SetRank support

Documentation

Maintainer

This tool is not maintained anymore.

Credits

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Publications

Institution(s)

Interfaculty Bioinformatics Unit and SIB Swiss Institute of Bioinformatics, University of Bern, Berne, Switzerland; Department of Clinical Research, University of Bern, Berne, Switzerland; Vital-IT, SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland; SIB Technology, SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland

Funding source(s)

Supported by the University of Bern and the Directorate of Teaching and Research of the Insel Gruppe Bern.

Link to literature

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