fbar: An Extensible Approach to Flux Balance Analysis

A simple package for Flux Balance Analysis and related metabolic modeling techniques. Functions are provided for: parsing models in tabular format, converting parsed metabolic models to input formats for common linear programming solvers, and evaluating and applying gene-protein-reaction mappings. In addition, there are wrappers to parse a model, select a solver, find the metabolic fluxes, and return the results applied to the original model. Compared to other packages in this field, this package puts a much heavier focus on providing reusable components that can be used in the design of new implementation of new techniques, in particular those that involve large parameter sweeps.

Version: 0.4.3
Depends: R (≥ 3.3.0)
Imports: assertthat, dplyr, magrittr, Matrix, purrr, rlang, ROI, ROI.plugin.ecos, stringr, tibble, tidyr
Suggests: jsonlite, knitr, rmarkdown, testthat
Published: 2018-04-04
Author: Max Conway [aut, cre]
Maintainer: Max Conway <conway.max1 at gmail.com>
BugReports: https://github.com/maxconway/fbar/issues
License: GPL-3
URL: http://maxconway.github.io/fbar/, https://github.com/maxconway/fbar
NeedsCompilation: no
Materials: README NEWS
CRAN checks: fbar results

Downloads:

Reference manual: fbar.pdf
Vignettes: Introduction
Multi-Objective Optimization case study
Tutorial
Package source: fbar_0.4.3.tar.gz
Windows binaries: r-prerel: fbar_0.4.3.zip, r-release: fbar_0.4.3.zip, r-oldrel: fbar_0.4.3.zip
OS X binaries: r-prerel: fbar_0.4.3.tgz, r-release: fbar_0.4.3.tgz
Old sources: fbar archive

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