piano
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see piano.
Platform for integrative analysis of omics data
Bioconductor version: 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("piano")):
Installation
To install this package, start R (version "3.6") 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 | R Script | |
| Running gene-set anaysis with piano | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DifferentialExpression, GeneExpression, GeneSetEnrichment, Microarray, Pathways, Preprocessing, QualityControl, Software, Visualization |
| Version | 2.0.2 |
| In Bioconductor since | BioC 2.12 (R-3.0) (11 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 | |
| URL | http://www.sysbio.se/piano |
| Bug Reports | https://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 | cTRAP, PharmacoGx |
| Suggests Me | BloodCancerMultiOmics2017 |
| Links To Me | |
| Build Report | 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 |
| Bioc Package Browser | https://code.bioconductor.org/browse/piano/ |
| Package Short Url | https://bioconductor.org/packages/piano/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |