POMA
Tools for Omics Data Analysis
Bioconductor version: Release (3.17)
A reproducible and easy-to-use toolkit for visualization, pre-processing, exploration, and statistical analysis of omics datasets. The main aim of POMA is to enable a flexible data cleaning and statistical analysis processes in one comprehensible and user-friendly R package. This package has a Shiny app version called POMAShiny that implements all POMA functions. See https://github.com/pcastellanoescuder/POMAShiny. See Castellano-Escuder P, González-Domínguez R, Carmona-Pontaque F, et al. (2021)
Author: Pol Castellano-Escuder [aut, cre] 
Maintainer: Pol Castellano-Escuder <polcaes at gmail.com>
citation("POMA")):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("POMA")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("POMA")| POMA EDA Example | HTML | R Script |
| POMA Normalization Methods | HTML | R Script |
| POMA Workflow | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | BatchEffect, Classification, Clustering, DecisionTree, DimensionReduction, MultidimensionalScaling, Normalization, Preprocessing, PrincipalComponent, RNASeq, Regression, Software, StatisticalMethod, Visualization |
| Version | 1.10.0 |
| In Bioconductor since | BioC 3.12 (R-4.0) (3 years) |
| License | GPL-3 |
| Depends | R (>= 4.0) |
| Imports | broom, caret, ComplexHeatmap, dbscan, dplyr, DESeq2, ggplot2, ggrepel, glasso (>= 1.11), glmnet, impute, limma, magrittr, mixOmics, randomForest, RankProd(>= 3.14), rmarkdown, SummarizedExperiment, tibble, tidyr, uwot, vegan |
| Linking To | |
| Suggests | BiocStyle, covr, ggraph, knitr, patchwork, plotly, tidyverse, testthat (>= 2.3.2) |
| System Requirements | |
| Enhances | |
| URL | https://github.com/pcastellanoescuder/POMA |
| Bug Reports | https://github.com/pcastellanoescuder/POMA/issues |
See More
| Depends On Me | |
| Imports Me | |
| Suggests Me | fobitools |
| Links To Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | POMA_1.10.0.tar.gz |
| Windows Binary | POMA_1.10.0.zip |
| macOS Binary (x86_64) | POMA_1.10.0.tgz |
| macOS Binary (arm64) | POMA_1.9.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/POMA |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/POMA |
| Bioc Package Browser | https://code.bioconductor.org/browse/POMA/ |
| Package Short Url | https://bioconductor.org/packages/POMA/ |
| Package Downloads Report | Download Stats |