Package: fbar 0.6.0

fbar: An Extensible Approach to Flux Balance Analysis

A toolkit 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. For a background on the theory, see What is Flux Balance Analysis <doi:10.1038/nbt.1614>.

Authors:Max Conway [aut, cre]

fbar_0.6.0.tar.gz
fbar_0.6.0.zip(r-4.5)fbar_0.6.0.zip(r-4.4)fbar_0.6.0.zip(r-4.3)
fbar_0.6.0.tgz(r-4.4-any)fbar_0.6.0.tgz(r-4.3-any)
fbar_0.6.0.tar.gz(r-4.5-noble)fbar_0.6.0.tar.gz(r-4.4-noble)
fbar_0.6.0.tgz(r-4.4-emscripten)fbar_0.6.0.tgz(r-4.3-emscripten)
fbar.pdf |fbar.html✨
fbar/json (API)
NEWS

Peer review:

Bug tracker:https://github.com/maxconway/fbar/issues

On CRAN:

13 exports 9 stars 1.40 score 31 dependencies 25 scripts 290 downloads

Last updated 4 years agofrom:6619facb92. Checks:OK: 7. Indexed: yes.

Exports:decompose_metabolitesexpanded_to_glpkexpanded_to_gurobiexpanded_to_reactiontblexpanded_to_ROIfind_flux_variability_dffind_fluxes_dfgene_associategene_evalget_BiGGreactiontbl_to_expandedreactiontbl_to_gurobirecompose_metabolites

Dependencies:assertthatbackportscheckmateclicpp11dplyrECOSolveRfansigenericsgluelatticelifecyclemagrittrMatrixpillarpkgconfigpurrrR6registryrlangROIROI.plugin.ecosslamstringistringrtibbletidyrtidyselectutf8vctrswithr