piano pipeline

piano specifications

Information


Unique identifier OMICS_01558
Name piano
Alternative name Platform for Integrated Analysis of Omics data
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.20.0
Stability Stable
Maintained Yes

Subtools


  • Consensus Gene Set Analysis tool
  • Gene set analysis
  • Microarray Differential Expression Analysis
  • Microarray Quality Check

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Documentation


Additional information


Some functionalities are also available at http://biomet-toolbox.chalmers.se/index.php?page=tools Tutorial: https://varemo.github.io/piano/quick_tutorial.html https://github.com/varemo/piano

Information


Unique identifier OMICS_01558
Name piano
Alternative name Platform for Integrated Analysis of Omics data
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Subtools


  • Consensus Gene Set Analysis tool
  • Gene set analysis
  • Microarray Differential Expression Analysis
  • Microarray Quality Check

Documentation


Additional information


Some functionalities are also available at http://biomet-toolbox.chalmers.se/index.php?page=tools Tutorial: https://varemo.github.io/piano/quick_tutorial.html https://github.com/varemo/piano

Publication for Platform for Integrated Analysis of Omics data

piano IN pipelines

 (2)
2017
PMCID: 5320501
PMID: 28225009
DOI: 10.1038/srep42633

[…] go enrichment was additionally examined by using the differential expression-associated statistics obtained through linear modeling in a distinct directional gene set analysis (page)66 using the piano package. b. oleae expression data and array platform have been uploaded to the gene expression omnibus with accession number gse82037., selected detoxification and digestive genes […]

2016
PMCID: 5153655
PMID: 27958370
DOI: 10.1038/srep39097

[…] of each individual adjuvant-treated group by the log2 expression value of the group receiving h56 alone at any given time point. a directional gene set go enrichment analysis was performed using the piano package49. the results were plotted as a heatmap of the enrichment score (−log10 (enrichment p value)). to identify global functional profiles, go terms were traced back to their corresponding […]

piano institution(s)
Department of Chemical and Biological Engineering, Chalmers University of Technology, Gothenburg, Sweden
piano funding source(s)
Supported by the Knut and Alice Wallenberg foundation, the Chalmers foundation, the Bioinformatics Infrastructure for Life Sciences (BILS).

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