• Home
• Bioconductor 3.24
• Software Packages
• tidysbml (development version)

tidysbml

This is the development version of tidysbml; for the stable release version, see tidysbml.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20

Extract SBML's data into dataframes

DOI: 10.18129/B9.bioc.tidysbml

Bioconductor version: Development (3.24)

Starting from one SBML file, it extracts information from each listOfCompartments, listOfSpecies and listOfReactions element by saving them into data frames. Each table provides one row for each entity (i.e. either compartment, species, reaction or speciesReference) and one set of columns for the attributes, one column for the content of the 'notes' subelement and one set of columns for the content of the 'annotation' subelement.

Author: Veronica Paparozzi [aut, cre] ORCID: 0009-0000-2961-1559 , Christine Nardini [aut] ORCID: 0000-0001-7601-321X

Maintainer: Veronica Paparozzi <veronicapaparozzi1 at gmail.com>

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

Veronica Paparozzi, Christine Nardini. tidysbml: Extract SBML's data into dataframes. doi:10.18129/B9.bioc.tidysbml, R package version 1.7.0, https://bioconductor.org/packages/tidysbml.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("tidysbml")

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("tidysbml")

Details

Package Archives

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