Mosquito Gene Drive Explorer


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Documentation for package ‘MGDrivE’ version 1.6.2

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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