mitology

This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see mitology.

Study of mitochondrial activity from RNA-seq data

Bioconductor version: 3.21

mitology allows to study the mitochondrial activity throught high-throughput RNA-seq data. It is based on a collection of genes whose proteins localize in to the mitochondria. From these, mitology provides a reorganization of the pathways related to mitochondria activity from Reactome and Gene Ontology. Further a ready-to-use implementation of MitoCarta3.0 pathways is included.

Author: Stefania Pirrotta [cre, aut] ORCID iD ORCID: 0009-0004-0030-217X , Enrica Calura [aut, fnd] ORCID iD ORCID: 0000-0001-8463-2432

Maintainer: Stefania Pirrotta <stefania.pirrotta at unipd.it>

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

Installation

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


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

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("mitology")

mitology vignette HTML R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews GO, GeneExpression, Pathways, RNASeq, Reactome, SingleCell, Software, Spatial, Visualization

Version 1.0.0

In Bioconductor since BioC 3.21 (R-4.5) (0.5 years)

License AGPL-3

Depends R (>= 4.5.0)

Imports AnnotationDbi, ape, circlize, ComplexHeatmap, ggplot2, ggtree, magrittr, org.Hs.eg.db, scales

System Requirements

URL https://github.com/CaluraLab/mitology

Bug Reports https://github.com/CaluraLab/mitology/issues

Suggests Biobase, BiocStyle, clusterProfiler, GSVA, methods, rmarkdown, knitr, SummarizedExperiment, testthat

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 mitology_1.0.0.tar.gz

Windows Binary (x86_64) mitology_1.0.0.zip

macOS Binary (x86_64) mitology_1.0.0.tgz

macOS Binary (arm64) mitology_1.0.0.tgz

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

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

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

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

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