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piano

This is the released version of piano; for the devel version, see piano.

All versions 3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12

Platform for integrative analysis of omics data


Bioconductor version: Release (3.23)

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")):

Leif Varemo Wigge and Intawat Nookaew. piano: Platform for integrative analysis of omics data. doi:10.18129/B9.bioc.piano, R package version 2.28.0, https://bioconductor.org/packages/piano.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("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")
Piano - Platform for Integrative Analysis of Omics data PDF R Script
Running gene-set anaysis with piano HTML R Script
Reference ManualPDF
NEWSText

Details

biocViews DifferentialExpression, GeneExpression, GeneSetEnrichment, Microarray, Pathways, Preprocessing, QualityControl, Software, Visualization
Version2.28.0
In Bioconductor sinceBioC 2.12 (R-3.0) (13.5 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
System Requirements
URLhttp://www.sysbio.se/piano
Bug Reportshttps://github.com/varemo/piano/issues
See More
Suggests yeast2.db, rsbml, plotrix, limma, affy, plier, affyPLM, gtools, biomaRt, snowfall, AnnotationDbi, knitr, rmarkdown, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me CoreGx, PDATK, SmartPhos
Suggests Me BloodCancerMultiOmics2017
Links To Me
Build Report Build Report, r-universe

Package Archives

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

Source Package piano_2.28.0.tar.gz
Windows Binary (x86_64) piano_2.28.0.zip
macOS Binary (big-sur-x86_64) piano_2.28.0.tgz
macOS Binary (sonoma-arm64) piano_2.28.0.tgz
Source Repositorygit clone https://git.bioconductor.org/packages/piano
Source Repository (Developer Access)git clone git@git.bioconductor.org:packages/piano
Package Short Url https://bioconductor.org/packages/piano/
Package Downloads ReportDownload Stats