piano

DOI: 10.18129/B9.bioc.piano    

Platform for integrative analysis of omics data

Bioconductor version: Release (3.9)

Piano performs gene set analysis using various statistical methods, from different gene level statistics and a wide range of gene-set collections. Furthermore, the Piano package contains functions for combining the results of multiple runs of gene set analyses.

Author: Leif Varemo Wigge <piano.rpkg at gmail.com> and Intawat Nookaew <piano.rpkg at gmail.com>

Maintainer: Leif Varemo Wigge <piano.rpkg at gmail.com>

Citation (from within R, enter citation("piano")):

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("piano")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("piano")

 

PDF R Script Piano - Platform for Integrative Analysis of Omics data
HTML R Script Running gene-set anaysis with piano
PDF   Reference Manual
Text   NEWS

Details

biocViews DifferentialExpression, GeneExpression, GeneSetEnrichment, Microarray, Pathways, Preprocessing, QualityControl, Software, Visualization
Version 2.0.2
In Bioconductor since BioC 2.12 (R-3.0) (6.5 years)
License GPL (>=2)
Depends R (>= 3.5)
Imports BiocGenerics, Biobase, gplots, igraph, relations, marray, fgsea, shiny, DT, htmlwidgets, shinyjs, shinydashboard, visNetwork, scales, grDevices, graphics, stats, utils, methods
LinkingTo
Suggests yeast2.db, rsbml, plotrix, limma, affy, plier, affyPLM, gtools, biomaRt, snowfall, AnnotationDbi, knitr, rmarkdown, BiocStyle
SystemRequirements
Enhances
URL http://www.sysbio.se/piano
BugReports https://github.com/varemo/piano/issues
Depends On Me
Imports Me cTRAP, PharmacoGx
Suggests Me BloodCancerMultiOmics2017
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package piano_2.0.2.tar.gz
Windows Binary piano_2.0.2.zip
Mac OS X 10.11 (El Capitan) piano_2.0.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/piano
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/piano
Package Short Url http://bioconductor.org/packages/piano/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive

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