# MEIGO - MEtaheuristics for bIoinformatics Global Optimization

## Documentation for package ‘MEIGOR’ version 1.12.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

BayesFit-package | BayesFit
essR-package | Global optimization algorithm for MINLPs based on Scatter Search
MEIGOR-package | Global optimization Toolbox
BayesFit | BayesFit
CeSSR | Global optimization algorithm for MINLPs based on Scatter Search using a Cooperative Strategy
CeVNSR | Global optimization algorithm for MINLPs based on VNS using a Cooperative Strategy
cnolist | A CNOlist from CellNOptR paclage
cur_params | Current values of all model parameters
dhc | Local search algorithm within eSS
essR | Global optimization algorithm for MINLPs based on Scatter Search
essR_multistart | Multistart function for eSS
eucl_dist | Computes the euclidean distance between the rows of two different matrices
ith_essR | Auxiliary function to perform parallel runs
ith_VNSR | Auxiliary function to perform parallel runs
MEIGO | MEIGO main function
model | A model from CellNoptR
nls_fobj | Auxiliary function to evaluate constraints
optim_fobj | Gateway function to evaluate the objective function when the local solvers are invoked.
paramsOpt | Optimal parameters for simulation with CNORode
runBayesFit | Running the BayesFit optimisation
rvnds_hamming | Main VNS function
rvnds_local | Local search in VNS
solnp_eq | Gateway function to evaluate the equality constraints when solnp is invoked as local solver
solnp_fobj | Gateway function to evaluate the objective function when solnp is invoked as local solver
solnp_ineq | Gateway function to evaluate the inequality constraints when solnp is invoked as local solver
ssm_beyond | Function that expands the search direction when a good offspring solution has been found
ssm_defaults | Sets the default options for eSSR
ssm_evalfc | Gateway function to evaluate the objective function in essR
ssm_isdif2 | Calculates relative errors between two vectors
ssm_localsolver | Configure local solver
ssm_optset | Assigns values to the options defined by the user
ssm_penalty_function | Calculates the penalized objective function in constrained problems
ssm_round_int | Rounds variables declared as integer of binary
vns_defaults | Default options for VNS
vns_optset | Set VNS options