activities | Activity computation |
alpha_ij | Redistribution coefficient computation |
apparent.activities.Aq | Apparent activity computation |
class_group | Classify enzymes in regulation groups |
coef_rep | Response coefficient computation |
coef_sel.continue | Selection coefficient computation |
coef_sel.discrete | Selection coefficient computation |
compute.beta.from.B | Co-regulation coefficient computation |
compute.B.from.beta | Global co-regulation coefficient computation |
compute.delta | Computation of mutation actual effect |
data_sim | Simulation results for each constraint |
droites | Line of relative enzyme concentrations (co-regulations cases) |
extract.tabEtot | Table of concentrations |
flux | Flux computation |
flux.dome.graphics | Plot of the flux dome |
flux.shape.for.all.points | Flux shape computing for all points |
flux.shape.from.one.point | Flux shape computing from one point |
flux.shape.from.one.point.graphics | Plots of flux shape computing from one point |
graph.simul.conc.end | Graphics of simulation ends |
graph.simul.triangle.diagram.e | Triangular diagram of relative concentrations for simulations... |
group_types | Which types are the different regulation groups? |
is.B.accurate | Verification of B accuracy |
is.beta.accurate | Verification of beta matrix accuracy |
is.correl.authorized | Verification of constraint name |
mut.E.direct | Direct mutation of enzyme concentrations |
mut.E.indirect | Indirect mutation of enzyme concentrations |
mut.E.old | Old method for mutation of enzyme concentrations |
mut.kin | Mutation of kinetic parameters |
name.correl | Help to name parameter 'correl' |
odd.discrete.sel.coef | Equation of null coefficient selection |
predict_eff | Prediction of effective equilibrium |
predict_eff_allE0 | Prediction of effective equilibrium for all possible initial... |
predict_grp | Prediction of equilibrium with regulation groups |
predict_th | Prediction of theoretical equilibrium |
range_delta | Bounds of _delta_i_ |
range_tau | Bounds of _tau_ |
RNV.compute.elements | Compute RNV and associated elements for all enzymes... |
RNV.delta.all.enz | Delta at RNV for all enzymes |
RNV.for.simul | Compute RNV for simulation |
RNV.graph.double.at.eq | Graph of e and RNV in relation to A at equilibrium |
RNV.mean.simul | Mean of RNV size in simulation |
RNV.mean.suitability | Compare RNV mean in simulation with predicted RNV at... |
RNV.ranking.order.factor | Name and value of RNV-ranking-order factor |
RNV.size.at.equilibr | Plot and linear model of RNV size at equilibrium |
search_group | Search the regulation group for an enzyme |
SimEvolEnzCons | SimEvolEnzCons: Simulation of Enzyme Evolution Under... |
simul.evol.enz.multiple | Multiple simulations of enzyme evolution |
simul.evol.enz.one | Simulation of enzyme evolution |
simul.evol.graph.methods | Graphic methods for simulations of enzyme evolution |
simul.next.resident | Time step simulation (next resident values) |
sol_eqeff | Expression of null response coefficient |
solv.2dg.polynom | Real solutions of quadratic equation |
sumbis | Sum of vector elements |
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