tidysbml

The package provides conversion from a SBML document to R dataframes. SBML components (i.e. listOfCompartments, listOfSpecies, listOfReactions) are translated into dataframes to access information and enable handily manipulations and subsequent analysis. For instance, these dataframes can be exploited for network’s analysis within R, where networks can be easily build starting from the output tabular data, which describe the biological pathway represented by the SBML selected.

Installation

To install the package from Bioconductor, run

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

BiocManager::install("tidysbml")

To install the package from Github, run

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

devtools::install_github("veronicapaparozzi/tidysbml", build_vignettes = TRUE)

Citation

To get citation information use

citation("tidysbml")

Contact

For bug reports, please register an issue here on Github page.