Bioconductor version: Release (3.14)
MicrobiotaProcess is an R package for analysis, visualization and biomarker discovery of microbial datasets. It introduces MPSE class, this make it more interoperable with the existing computing ecosystem. Moreover, it introduces a tidy microbiome data structure paradigm and analysis grammar. It provides a wide variety of microbiome analsys procedures under the unified and common framework (tidy-like framework).
Author: Shuangbin Xu [aut, cre] , Guangchuang Yu [aut, ctb]
Maintainer: Shuangbin Xu <xshuangbin at 163.com>
Citation (from within R,
enter citation("MicrobiotaProcess")
):
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("MicrobiotaProcess")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("MicrobiotaProcess")
HTML | R Script | Introduction to MicrobiotaProcess |
Reference Manual | ||
Text | NEWS |
biocViews | FeatureExtraction, Microbiome, MultipleComparison, Software, Visualization |
Version | 1.6.6 |
In Bioconductor since | BioC 3.11 (R-4.0) (2 years) |
License | GPL (>= 3.0) |
Depends | R (>= 4.0.0) |
Imports | ape, tidyr, ggplot2, magrittr, dplyr, Biostrings, ggrepel, vegan, zoo, ggtree, tidytree (>= 0.3.5), MASS, methods, rlang, tibble, grDevices, stats, utils, coin, ggsignif, patchwork, ggstar, tidyselect, SummarizedExperiment, foreach, treeio(>= 1.17.2), pillar, dtplyr, ggtreeExtra |
LinkingTo | |
Suggests | rmarkdown, prettydoc, testthat, knitr, nlme, phangorn, plyr, DECIPHER, randomForest, biomformat, scales, yaml, withr, S4Vectors, purrr, seqmagick, glue, corrr, ggupset, ggVennDiagram, gghalves, ggalluvial (>= 0.11.1), forcats, cli, phyloseq, aplot, ggnewscale, ggside, ggh4x, hopach |
SystemRequirements | |
Enhances | |
URL | https://github.com/YuLab-SMU/MicrobiotaProcess/ |
BugReports | https://github.com/YuLab-SMU/MicrobiotaProcess/issues |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | MicrobiotaProcess_1.6.6.tar.gz |
Windows Binary | MicrobiotaProcess_1.6.6.zip |
macOS 10.13 (High Sierra) | MicrobiotaProcess_1.6.6.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/MicrobiotaProcess |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MicrobiotaProcess |
Package Short Url | https://bioconductor.org/packages/MicrobiotaProcess/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.14 | Source Archive |
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