miaTime

This is the released version of miaTime; for the devel version, see miaTime.

Microbiome Time Series Analysis

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DOI: 10.18129/B9.bioc.miaTime

Bioconductor version: Release (3.22)

The `miaTime` package provides tools for microbiome time series analysis based on (Tree)SummarizedExperiment infrastructure.

Author: Leo Lahti [aut] ORCID iD ORCID: 0000-0001-5537-637X , Tuomas Borman [aut, cre] ORCID iD ORCID: 0000-0002-8563-8884 , Yagmur Simsek [aut], Sudarshan Shetty [ctb], Chouaib Benchraka [ctb], Muluh Muluh [ctb], Ali Hajj [ctb]

Maintainer: Tuomas Borman <tuomas.v.borman at utu.fi>

Citation (from within R, enter citation("miaTime")):

Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("miaTime")

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("miaTime")

miaTime HTML R Script

Reference Manual PDF

NEWS Text

LICENSE Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Microbiome, Sequencing, Software

Version 1.0.0

In Bioconductor since BioC 3.22 (R-4.5) (< 6 months)

License Artistic-2.0 | file LICENSE

Depends R (>= 4.5.0), mia

Imports dplyr, methods, S4Vectors, SingleCellExperiment, stats, SummarizedExperiment, tidyr, TreeSummarizedExperiment

System Requirements

URL https://github.com/microbiome/miaTime

Bug Reports https://github.com/microbiome/miaTime/issues

Suggests BiocStyle, devtools, ggplot2, knitr, lubridate, miaViz, rmarkdown, scater, testthat, vegan

Linking To

Enhances

Depends On Me

Imports Me

Suggests Me miaViz

Links To Me

Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package miaTime_1.0.0.tar.gz

Windows Binary (x86_64) miaTime_1.0.0.zip

macOS Binary (x86_64)

macOS Binary (arm64)

Source Repository git clone https://git.bioconductor.org/packages/miaTime

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/miaTime

Bioc Package Browser https://code.bioconductor.org/browse/miaTime/

Package Short Url https://bioconductor.org/packages/miaTime/

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