Man pages for MGDrivE
Mosquito Gene Drive Explorer
| aggregateFemales | Aggregate Female Output by Genotype |
| aggregateOutput | Aggregate Output Over Landscape |
| basicBatchMigration | Make List of Batch Migration Parameters |
| basicRepeatedReleases | Make List of Modified Mosquito Releases |
| calcAquaticStageSurvivalProbability | Calculate Aquatic Stage Survival Probability |
| calcAverageGenerationTime | Calculate Average Generation Time |
| calcCos | Calculate Geodesic Distance - Cosine Method |
| calcDensityDependentDeathRate | Calculate Density-dependent Larval Mortality |
| calcExpKernel | Calculate Exponential Stochastic Matrix |
| calcGammaKernel | Calculate Gamma Stochastic Matrix |
| calcHaversine | Calculate Geodesic Distance - Haversine Method |
| calcHurdleExpKernel | Calculate Zero-inflated Exponential Stochastic Matrix |
| calcLarvalDist | Calculate Distribution of Larval Population |
| calcLarvalPopEquilibrium | Calculate Equilibrium Larval Population |
| calcLarvalStageMortalityRate | Calculate Larval Stage Mortality Rate |
| calcLognormalKernel | Calculate Lognormal Stochastic Matrix |
| calcOmega | Solve for Omega (additional genotype-specific mortality) |
| calcPopulationGrowthRate | Calculate Generational Population Growth Rate |
| calcQuantiles | Summary Statistics for Stochastic MGDrivE |
| calcVinEll | Calculate Geodesic Distance - Vincenty Ellipsoid Method |
| calcVinSph | Calculate Geodesic Distance - Vincenty Sphere Method |
| calcZeroInflation | Calculates the zero-inflation part of a hurdle exponential... |
| cube2csv | Export a Cube to .csv |
| cubeClvR | Inheritance Cube: ClvR (Cleave and Rescue) |
| cubeClvR2 | Inheritance Cube: 2-Locus ClvR (Cleave and Rescue) |
| cubeECHACR | Inheritance Cube: ECHACR |
| cubeECHACRX | Inheritance Cube: ECHACRX |
| cubeHoming1RA | Inheritance Cube: Homing Drive with 1 Resistance Allele |
| cubeHomingDrive | Inheritance Cube: CRISPR (Clustered Regularly Interspaced... |
| cubeKillerRescue | Inheritance Cube: Killer-Rescue System |
| cubeMEDEA | Inheritance Cube: MEDEA (Maternal Effect Dominant Embryonic... |
| cubeMendelian | Inheritance Cube: Mendelian |
| cubeModifiers | Generate and Modify Default Genotype-specific Parameters |
| cubeOneLocusTA | Inheritance Cube: 1 Locus Maternal-Toxin/Zygotic-Antidote... |
| cubeReciprocalTranslocations | Inheritance Cube: Reciprocal Translocation |
| cubeRIDL | Inheritance Cube: RIDL (Release of Insects with Dominant... |
| cubeSplitDrive | Inheritance Cube: Split CRISPR drive with 2 Resistance... |
| cubeTGD | Inheritance Cube: tGD |
| cubeTGDX | Inheritance Cube: tGDX |
| cubeTwoLocusTA | Inheritance Cube: 2 Locus Maternal-Toxin/Zygotic-Antidote... |
| cubeWolbachia | Inheritance Cube: Wolbachia |
| eraseDirectory | Erase all files in a directory |
| generateReleaseVector | Make List of Modified Mosquito Releases |
| get_alpha_Network | Get alpha |
| get_beta_Network | Get beta |
| get_conF_Network | Get conADF |
| get_conM_Network | Get conADM |
| get_drivecubeindex_Network | Get Element(s) of Drive Cube by Index |
| get_eta_Network | Get eta |
| get_femalePop_Patch | Get female Population |
| get_genotypesID_Network | Get genotypesID |
| get_genotypesN_Network | Get genotypesN |
| get_malePop_Patch | Get male Population |
| get_muAd_Network | Get muAd |
| get_muAq_Network | Get muAq |
| get_nPatch_Network | Get nPatch |
| get_omega_Network | Get omega |
| get_patchReleases_Network | Get Patch Release Schedule |
| get_phi_Network | Get phi |
| get_s_Network | Get s |
| get_tau_Network | Get Female Viability Mask (tau) |
| get_timeAq_Network | Get timeAq |
| get_tNow_Network | Get tNow |
| get_xiF_Network | Get xiF |
| get_xiM_Network | Get xiM |
| ggColUtility | Utility to Imitate ggplot2 Colors |
| kernels | Kernels Parameters |
| MGDrivE | MGDrivE: Mosquito Gene Drive Explorer |
| MGDrivE-Cube | MGDrivE: Inheritance Cube |
| MGDrivE-Model | MGDrivE: Model's Mathematical Description |
| moveMatAll2 | Movement Matrix: All 2 |
| moveMatCascade3 | Movement Matrix: Cascade 3 |
| moveMatDiag | Movement Matrix: Diagonal |
| moveMatDiagOneCity | Movement Matrix: Diagonal One City |
| moveMatDie | Movement Matrix: Die |
| moveMatIndependent3 | Movement Matrix: Independent 3 |
| moveMatMixedSpil | Movement Matrix: Mixed Spill |
| moveMatTaleOfTwoCities | Movement Matrix: Tale of Two Cities |
| moveMatTriDiagonal | Movement Matrix: Tri-diagonal |
| moveMatTriple | Movement Matrix: Triple |
| multRun_Network | Run Simulation |
| Network | Network Class Definition |
| normalise | Normalise a Numeric Vector |
| oneDay_adultDeath_deterministic_Patch | Deterministic Adult Survival |
| oneDay_adultDeath_stochastic_Patch | Stochastic Adult Survival |
| oneDay_eggDM_deterministic_Patch | Deterministic Egg Death and Pupation |
| oneDay_eggDM_stochastic_Patch | Stochastic Egg Death and Pupation |
| oneDay_eggReleases_Patch | Release Eggs in a Patch |
| oneDay_initOutput_Patch | Initialize Output from Focal Patch |
| oneDay_larvaDM_deterministic_Patch | Deterministic Larva Death and Pupation |
| oneDay_larvaDM_stochastic_Patch | Stochastic Larva Death and Pupation |
| oneDay_mating_deterministic_Patch | Deterministic Mating |
| oneDay_mating_stochastic_Patch | Stochastic Mating |
| oneDay_Migration_Deterministic_Network | Deterministic Inter-Patch Migration |
| oneDay_migrationIn_Patch | Inbound Migration |
| oneDay_Migration_Stochastic_Network | Stochastic Inter-Patch Migration |
| oneDay_Network | Run a Single Day on a Network |
| oneDay_oviposit_deterministic_Patch | Deterministic Oviposition |
| oneDay_oviposit_stochastic_Patch | Stochastic Oviposition |
| oneDay_PopDynamics_Patch | Daily Population Dynamics for a Patch |
| oneDay_pupaDM_deterministic_Patch | Deterministic Pupa Death and Pupation |
| oneDay_pupaDM_stochastic_Patch | Stochastic Pupa Death and Pupation |
| oneDay_pupation_deterministic_Patch | Deterministic Pupation |
| oneDay_pupation_stochastic_Patch | Stochastic Pupation |
| oneDay_releases_Patch | Release Male/Female/Mated-Female Mosquitoes in a Patch |
| oneDay_writeOutput_Patch | Write Output from Focal Patch |
| oneRun_Network | Run Simulation |
| parameterizeMGDrivE | parameterizeMGDrivE |
| Patch | Patch Class Definition |
| plotMGDrivEMult | Plot |
| plotMGDrivESingle | Plot |
| quantileC | Quantiles Function |
| rDirichlet | Dirichlet Distribution |
| reset_Network | Reset Network |
| reset_Patch | Reset Patch to Initial Conditions |
| retrieveOutput | Retrieve Output |
| set_initialPopulation_Patch | Set Initial Population |
| set_NetworkPointer_Patch | Set Network Pointer |
| set_population_deterministic_Patch | Set Initial Population Deterministic |
| set_population_stochastic_Patch | Set Initial Population Stochastic |
| setupMGDrivE | Setup MGDrivE |
| splitOutput | Split Output by Patch |
