| aggregateFemales | Aggregate Female Output by Genotype |
| aggregateOutput | Aggregate Output Over Landscape |
| basicBatchMigration | Make List of Batch Migration Parameters |
| calcCos | Calculate Geodesic Distance - Cosine Method |
| calcExpKernel | Calculate Exponential Stochastic Matrix |
| calcGammaKernel | Calculate Gamma Stochastic Matrix |
| calcHaversine | Calculate Geodesic Distance - Haversine Method |
| calcHurdleExpKernel | Calculate Zero-inflated Exponential Stochastic Matrix |
| calcLognormalKernel | Calculate Lognormal Stochastic Matrix |
| calcOmega | Solve for Omega (additional genotype-specific mortality) |
| 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 kernel. |
| cube2csv | Export a Cube to .csv |
| cubeAlleleSail | Inheritance Cube: 3-Piece Allele Sail |
| cubeASmidler | Inheritance Cube: Split-Drive for Andrea Smidler |
| cubeCLEAVRMF | Inheritance Cube: CLEAVR - Cleave and Rescue |
| cubeCLEAVRX | Inheritance Cube: CLEAVR - Cleave and Rescue |
| cubeClvR | Inheritance Cube: ClvR (Cleave and Rescue) |
| cubeClvR2 | Inheritance Cube: 2-Locus ClvR (Cleave and Rescue) |
| cubeConfinableHoming | Inheritance Cube: Confinable Homing |
| cubeConfinableHomingJOHN | Inheritance Cube: Confinable Homing Drive, John |
| cubeConfinableHomingX | Inheritance Cube: Confinable Homing, X-Linked |
| cubeECHACR | Inheritance Cube: ECHACR |
| cubeECHACRX | Inheritance Cube: ECHACRX |
| cubeHoming1RA | Inheritance Cube: Homing Drive with 1 Resistance Allele |
| cubeHomingDrive | Inheritance Cube: CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) with 2 Resistance Alleles and maternal deposition |
| cubeHomingDriveSM | Inheritance Cube: CRISPR-SM (Clustered Regularly Interspaced Short Palindromic Repeats) with Small-Molecule Induction and 1 Resistance Allele and Maternal Deposition |
| cubeImmunizingReversalMF | Inheritance Cube: Immunizing Reversal/Basic Reversal |
| cubeImmunizingReversalX | Inheritance Cube: Immunizing Reversal |
| cubeKillerRescue | Inheritance Cube: Killer-Rescue System |
| cubeMEDEA | Inheritance Cube: MEDEA (Maternal Effect Dominant Embryonic Arrest) |
| cubeMendelian | Inheritance Cube: Mendelian |
| cubeOneLocusTA | Inheritance Cube: 1 Locus Maternal-Toxin/Zygotic-Antidote System |
| cubeReciprocalTranslocations | Inheritance Cube: Reciprocal Translocation |
| cubeRIDL | Inheritance Cube: RIDL (Release of Insects with Dominant Lethality) |
| cubeSplitDrive | Inheritance Cube: Split CRISPR Drive with 2 Resistance Alleles and male/female specific homing |
| cubeSplitDriveX | Inheritance Cube: X-linked Split CRISPR Drive with 2 Resistance Alleles and male/female specific homing |
| cubeSplitDriveY | Inheritance Cube: Y-linked Split CRISPR Drive with 2 Resistance Alleles |
| cubeTGD | Inheritance Cube: tGD |
| cubeTGDX | Inheritance Cube: tGDX |
| cubeTwoLocusTA | Inheritance Cube: 2 Locus Maternal-Toxin/Zygotic-Antidote System |
| cubeWolbachia | Inheritance Cube: Wolbachia |
| cubeXHomingDeposition | Inheritance Cube: CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) X-linked with 2 Resistance Allele and Maternal Deposition |
| cubeXShredderMF | Inheritance Cube: Autosomal X-Shredder |
| cubeXShredderY | Inheritance Cube: Y-Linked X-Shredder |
| eraseDirectory | Erase all files in a directory |
| generateReleaseVector | Make List of Modified Mosquito Releases |
| 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 |
| oneRun_Network | Run Simulation |
| parameterizeMGDrivE | parameterizeMGDrivE |
| Patch | Patch Class Definition |
| plotMGDrivEMult | Plot |
| plotMGDrivESingle | Plot |
| reset_Network | Reset Network |
| retrieveOutput | Retrieve Output |
| setupMGDrivE | Setup MGDrivE |
| splitOutput | Split Output by Patch |