PIUMA
This is thereleased version of PIUMA; for the devel version, seePIUMA.
Phenotypes Identification Using Mapper from topological data Analysis
Bioconductor version: Release (3.22)
The PIUMA package offers a tidy pipeline of Topological Data Analysis frameworks to identify and characterize communities in high and heterogeneous dimensional data.
Author: Mattia Chiesa [aut, cre]
ORCID: 0000-0001-7427-9954, Arianna Dagliati [aut] ORCID: 0000-0002-5041-0409, Alessia Gerbasi [aut] ORCID: 0000-0003-4501-1777, Giuseppe Albi [aut], Laura Ballarini [aut], Luca Piacentini [aut] ORCID: 0000-0003-1022-4481
Maintainer: Mattia Chiesa <mattia.chiesa at cardiologicomonzino.it>
citation("PIUMA")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("PIUMA")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("PIUMA")| PIUMA package | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Classification,Clustering,DimensionReduction,GraphAndNetwork,Network,Software |
| Version | 1.5.0 |
| In Bioconductor since | BioC 3.19 (R-4.4) (1.5 years) |
| License | GPL-3 + fileLICENSE |
| Depends | R (>= 4.3),ggplot2 |
| Imports | cluster,umap,tsne,kernlab,vegan,dbscan,igraph,scales,Hmisc,patchwork, grDevices, stats, methods,SummarizedExperiment |
| System Requirements | |
| URL | https://github.com/BioinfoMonzino/PIUMA |
| Bug Reports | https://github.com/BioinfoMonzino/PIUMA/issues |
See More
| Suggests | BiocStyle,knitr,testthat,rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | PIUMA_1.5.0.tar.gz |
| Windows Binary (x86_64) | PIUMA_1.5.0.zip |
| macOS Binary (x86_64) | PIUMA_1.5.0.tgz |
| macOS Binary (arm64) | PIUMA_1.5.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/PIUMA |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/PIUMA |
| Bioc Package Browser | https://code.bioconductor.org/browse/PIUMA/ |
| Package Short Url | https://bioconductor.org/packages/PIUMA/ |
| Package Downloads Report | Download Stats |