Files in rdinnager/slimrlang

Write SLiM Population Genetics Simulation Scripts in R

LICENSE.md NEWS.md R/rstudio.R R/slim_callbacks.R R/slim_lang.R R/slimr_code.R R/slimr_forcing.R R/slimr_output.R R/slimr_script.R R/slimr_scripting.R R/slimr_template.R R/slimrlang-package.R R/utils-misc.R R/utils-pipe.R R/utils-tidy-eval.R R/utils.R README.Rmd README.md data-raw/build_slimrlang.R man/Chromosome.Rd man/Genome.Rd man/GenomicElement.Rd man/GenomicElementType.Rd man/Individual.Rd man/Initialize.Rd man/InteractionType.Rd man/Mutation.Rd man/MutationType.Rd man/SLiMBuiltin.Rd man/SLiMEidosBlock.Rd man/SLiMSim.Rd man/Subpopulation.Rd man/Substitution.Rd man/addCloned.Rd man/addCrossed.Rd man/addEmpty.Rd man/addMutations.Rd man/addNewDrawnMutation.Rd man/addNewMutation.Rd man/addRecombinant.Rd man/addSelfed.Rd man/addSubpop.Rd man/addSubpopSplit.Rd man/ancestralNucleotides.Rd man/as_slim_text.slimr_script.Rd man/as_slimr_script.Rd man/cachedFitness.Rd man/codonsToAminoAcids.Rd man/configureDisplay.Rd man/containsMarkerMutation.Rd man/containsMutations.Rd man/countOfMutationsOfType.Rd man/defineSpatialMap.Rd man/deregisterScriptBlock.Rd man/distance.Rd man/distanceToPoint.Rd man/drawBreakpoints.Rd man/drawByStrength.Rd man/drawSelectionCoefficient.Rd man/evaluate.Rd man/getValue.Rd man/grapes-.-grapes.Rd man/grapes-help-grapes.Rd man/initializeAncestralNucleotides.Rd man/initializeGeneConversion.Rd man/initializeGenomicElement.Rd man/initializeGenomicElementType.Rd man/initializeHotspotMap.Rd man/initializeInteractionType.Rd man/initializeMutationRate.Rd man/initializeMutationType.Rd man/initializeMutationTypeNuc.Rd man/initializeRecombinationRate.Rd man/initializeSLiMModelType.Rd man/initializeSLiMOptions.Rd man/initializeSex.Rd man/initializeTreeSeq.Rd man/interactingNeighborCount.Rd man/interactionDistance.Rd man/mm16To256.Rd man/mmJukesCantor.Rd man/mmKimura.Rd man/mutationCounts.Rd man/mutationFrequencies.Rd man/mutationsOfType.Rd man/nearestInteractingNeighbors.Rd man/nearestNeighbors.Rd man/nearestNeighborsOfPoint.Rd man/nucleotideCounts.Rd man/nucleotideFrequencies.Rd man/nucleotides.Rd man/nucleotidesToCodons.Rd man/output.Rd man/outputFixedMutations.Rd man/outputFull.Rd man/outputMS.Rd man/outputMSSample.Rd man/outputMutations.Rd man/outputSample.Rd man/outputUsage.Rd man/outputVCF.Rd man/outputVCFSample.Rd man/pipe.Rd man/pointInBounds.Rd man/pointPeriodic.Rd man/pointReflected.Rd man/pointStopped.Rd man/pointUniform.Rd man/positionsOfMutationsOfType.Rd man/readFromMS.Rd man/readFromPopulationFile.Rd man/readFromVCF.Rd man/recalculateFitness.Rd man/reconstruct.slimr_script.Rd man/registerEarlyEvent.Rd man/registerFitnessCallback.Rd man/registerInteractionCallback.Rd man/registerLateEvent.Rd man/registerMateChoiceCallback.Rd man/registerModifyChildCallback.Rd man/registerMutationCallback.Rd man/registerRecombinationCallback.Rd man/registerReproductionCallback.Rd man/relatedness.Rd man/removeMutations.Rd man/removeSubpopulation.Rd man/rescheduleScriptBlock.Rd man/sampleIndividuals.Rd man/setAncestralNucleotides.Rd man/setCloningRate.Rd man/setDistribution.Rd man/setGeneConversion.Rd man/setGenomicElementType.Rd man/setHotspotMap.Rd man/setInteractionFunction.Rd man/setMigrationRates.Rd man/setMutationFractions.Rd man/setMutationMatrix.Rd man/setMutationRate.Rd man/setMutationType.Rd man/setRecombinationRate.Rd man/setSelectionCoeff.Rd man/setSelfingRate.Rd man/setSexRatio.Rd man/setSpatialBounds.Rd man/setSpatialPosition.Rd man/setSubpopulationSize.Rd man/setValue.Rd man/simulationFinished.Rd man/slim_block.Rd man/slim_script.Rd man/slimr_clip_original.Rd man/slimr_open_original.Rd man/slimr_output.Rd man/slimr_script_render.Rd man/slimr_template_info.Rd man/slimr_write.Rd man/slimrlang-vctrs.Rd man/spatialMapColor.Rd man/spatialMapValue.Rd man/strength.Rd man/subsetIndividuals.Rd man/sumOfMutationsOfType.Rd man/takeMigrants.Rd man/tidyeval.Rd man/totalOfNeighborStrengths.Rd man/treeSeqCoalesced.Rd man/treeSeqOutput.Rd man/treeSeqRememberIndividuals.Rd man/treeSeqSimplify.Rd man/unevaluate.Rd man/uniqueMutationsOfType.Rd tests/testthat.R tests/testthat/test-slimr_code.R tests/testthat/test-slimr_script.R tests/testthat/test-slimr_scripting.R tests/testthat/test-slimr_template.R vignettes/slimrlang_intro.Rmd