fbar: An Extensible Approach to Flux Balance Analysis

This is a simple package for Flux Balance Analysis and related metabolic modelling 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: 0.1.23
Depends: R (≥ 3.0.0)
Imports: assertthat, Matrix, dplyr, tidyr, purrr, tibble, stringr, magrittr, ROI
Suggests: knitr, rmarkdown, testthat, tidyverse, Rglpk, ROI.plugin.ecos, ROI.plugin.glpk
Published: 2017-01-14
Author: Max Conway [aut, cre]
Maintainer: Max Conway <conway.max1 at gmail.com>
License: GPL-3
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_0.1.23.tar.gz
Windows binaries: r-devel: fbar_0.1.23.zip, r-release: fbar_0.1.23.zip, r-oldrel: fbar_0.1.23.zip
OS X El Capitan binaries: r-release: fbar_0.1.23.tgz
OS X Mavericks binaries: r-oldrel: fbar_0.1.23.tgz
Old sources: fbar archive

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