Network: Network Class Definition

NetworkR Documentation

Network Class Definition

Description

A Network class object stores all the information for a simulation on a defined landscape.

Format

An R6Class generator object

Constructor

  • params: see parameterizeMGDrivE

  • driveCube: an inheritance cube

  • patchReleases: see basicRepeatedReleases for examples on how to set up release schedules

  • migrationMale: a stochastic matrix whose dimensions conform to the number of patches

  • migrationFemale: a stochastic matrix whose dimensions conform to the number of patches

  • migrationBatch: a list of batch migration parameters. SeebasicBatchMigration

  • directory: character string of output directory

  • verbose: Chatty? Default is TRUE

Methods

  • get_timeAq: see get_timeAq_Network

  • get_beta: see get_beta_Network

  • get_muAd: see get_muAd_Network

  • get_muAq: see get_muAq_Network

  • get_alpha: see get_alpha_Network

  • get_drivecubeindex: see get_drivecubeindex_Network

  • get_tau: see get_tau_Network

  • get_genotypesID: see get_genotypesID_Network

  • get_genotypesN: see get_genotypesN_Network

  • get_eta: see get_eta_Network

  • get_phi: see get_phi_Network

  • get_omega: see get_omega_Network

  • get_xiF: see get_xiF_Network

  • get_xiM: see get_xiM_Network

  • get_s: see get_s_Network

  • get_nPatch: see get_nPatch_Network

  • get_conADM: see get_conM_Network

  • get_conADF: see get_conF_Network

  • get_tNow: see get_tNow_Network

  • get_patchReleases: see get_patchReleases_Network

  • oneDay_Migration: see oneDay_Migration_Deterministic_Network or see oneDay_Migration_Stochastic_Network

  • reset: see reset_Network

  • oneDay: see oneDay_Network

  • oneRun: see oneRun_Network

  • multRun: see multRun_Network

Fields

  • parameters: see parameterizeMGDrivE

  • patches: a list of Patch objects

  • nPatch: number of patches

  • simTime: maximum time of simulation

  • sampTime: how often to write output, tNow %% sampTime

  • driveCube: an inheritance cube

  • tNow: current time of simulation (time starts at 2 because time 1 is the initial equilibrium state)

  • runID: an identifier for the current simulation run, useful for Monte Carlo simulation

  • directory: a character string of where to store output

  • conADM: a connection to write male population dynamics out to

  • conADF: a connection to write female population dynamics out to

  • migrationMale: a stochastic matrix whose dimensions conform to the number of patches

  • migrationFemale: a stochastic matrix whose dimensions conform to the number of patches

  • migrationBatch: list of items for batch migration in stochastic sim.

  • mMoveMat: holder object for male migration

  • fMoveArray: holder object for female migration

  • patchReleases: a list of release schedules for each patch

Examples

 ## Not run: 
 # There are no simple examples for this, so looking at the vignettes would be
 #  most useful.

 # Complete manual with examples, but none explored in depth.
 vignette("MGDrivE-Examples", package = "MGDrivE")

 # One example, explored in great detail. This is probably more helpful.
 vignette("MGDrivE-Run", package = "MGDrivE")

 
## End(Not run)


MGDrivE documentation built on Sept. 9, 2025, 5:42 p.m.