Files in shackett/simmer
Systematic Identification of Meaningful Metabolic Enzyme Regulation
DESCRIPTION
NAMESPACE
R/.DS_Store
R/MCMC_NNLS_functions.R
R/QP_FBA_functions.R
R/misc.R
README.md
SIMMER.Rproj
data/rMech_summary_table.rda
data/reactionForms.rda
inst/doc/MCMC_NNLS.R
inst/doc/MCMC_NNLS.Rmd
inst/doc/MCMC_NNLS.html
inst/doc/QP_FBA.R
inst/doc/QP_FBA.Rmd
inst/doc/QP_FBA.html
inst/extdata/flux_input_data/Boer_nutrients.txt
inst/extdata/flux_input_data/boundaryFluxes.Rdata
inst/extdata/flux_input_data/proteinAbundance.tsv
inst/extdata/genome_scale_model/comp_yeast.tsv
inst/extdata/genome_scale_model/customRxns.txt
inst/extdata/genome_scale_model/flux_dir_yeast.tsv
inst/extdata/genome_scale_model/rxn_par_yeast.tsv
inst/extdata/genome_scale_model/rxn_yeast.tsv
inst/extdata/genome_scale_model/spec_yeast.tsv
inst/extdata/genome_scale_model/species_par_yeast.tsv
inst/extdata/genome_scale_model/thermoAnnotate.txt
inst/extdata/reactionEqn_fitting/rMech_summary_table.tsv
inst/extdata/reactionEqn_fitting/reactionForms.Rds
man/build_kinetic_parameter_priors.Rd
man/build_stoiMat.Rd
man/calculate_QP_fluxes.Rd
man/finalize_reaction_equations.Rd
man/fit_reaction_equation_MCMC_NNLS.Rd
man/fit_reaction_equations.Rd
man/format_boundary_conditions.Rd
man/format_omic_data.Rd
man/format_raw_equations.Rd
man/lik_calc_fittedSD.Rd
man/load_metabolic_model.Rd
man/par_draw.Rd
man/parse_custom.Rd
man/populate_reactionEqns.Rd
man/setup_FBA_constraints.Rd
man/summarize_kinetic_parameters.Rd
python/.DS_Store
python/qp_fba_clust.py
tests/testthat.R
tests/testthat/test-mcmc-nnls.R
vignettes/MCMC_NNLS.Rmd
vignettes/MCMC_NNLS_cache/html/__packages
vignettes/MCMC_NNLS_cache/html/loop_all_rMechs_c1218e41a8797853065e4d7ebdfc1c7d.RData
vignettes/MCMC_NNLS_cache/html/loop_all_rMechs_c1218e41a8797853065e4d7ebdfc1c7d.rdb
vignettes/MCMC_NNLS_cache/html/loop_all_rMechs_c1218e41a8797853065e4d7ebdfc1c7d.rdx
vignettes/QP_FBA.Rmd
