PIUMA
This is the development version of PIUMA; for the stable release version, see PIUMA.
Phenotypes Identification Using Mapper from topological data Analysis
Bioconductor version: Development (3.21)
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:
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")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("PIUMA")
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("PIUMA")| PIUMA package | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Classification, Clustering, DimensionReduction, GraphAndNetwork, Network, Software |
| Version | 1.3.0 |
| In Bioconductor since | BioC 3.19 (R-4.4) (0.5 years) |
| License | GPL-3 + file LICENSE |
| 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
Follow Installation instructions to use this package in your R session.
| Source Package | PIUMA_1.3.0.tar.gz |
| Windows Binary (x86_64) | PIUMA_1.3.0.zip |
| macOS Binary (x86_64) | PIUMA_1.3.0.tgz |
| macOS Binary (arm64) | PIUMA_1.3.0.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 |