Name		Name	Last commit message	Last commit date
drafts		drafts
interesting-landscape		interesting-landscape
interim-report-figures		interim-report-figures
machineLearning		machineLearning
week6		week6
wright-fisher-images		wright-fisher-images
wright-fisher-model		wright-fisher-model
README.md		README.md
abc_1.m		abc_1.m
abc_2.m		abc_2.m
abc_3.m		abc_3.m
abc_3_data_real_landscape_1.mat		abc_3_data_real_landscape_1.mat
abc_3_data_simple_model_landscape_1.mat		abc_3_data_simple_model_landscape_1.mat
abc_3_data_simulator_2.mat		abc_3_data_simulator_2.mat
abc_3_data_simulator_3.mat		abc_3_data_simulator_3.mat
abc_4.m		abc_4.m
abc_5.m		abc_5.m
abc_6.m		abc_6.m
abc_run_1.mat		abc_run_1.mat
adaptiveWalk.m		adaptiveWalk.m
adaptiveWalkParamOpt.m		adaptiveWalkParamOpt.m
assignFitness.m		assignFitness.m
assignFitness2.m		assignFitness2.m
bayesian_optimisation.m		bayesian_optimisation.m
calcObjFunc.m		calcObjFunc.m
calcSummaryStats.m		calcSummaryStats.m
calcSummaryStatsAll.m		calcSummaryStatsAll.m
calculateMeanFitness.m		calculateMeanFitness.m
combineInflections.m		combineInflections.m
computePlateauLength.m		computePlateauLength.m
computeSummaryStats.m		computeSummaryStats.m
computeTimeToPercentageMax.m		computeTimeToPercentageMax.m
computeTimeToPlateau.m		computeTimeToPlateau.m
constructFitnessLandscapeBones.m		constructFitnessLandscapeBones.m
constructSimpleFL2.m		constructSimpleFL2.m
constructSimpleFitnessLandscape.m		constructSimpleFitnessLandscape.m
data_for_inflection_points.mat		data_for_inflection_points.mat
data_validation.m		data_validation.m
distinguishable_colors.m		distinguishable_colors.m
drawArrow.m		drawArrow.m
estimate_mu_sigma.m		estimate_mu_sigma.m
estimate_mu_sigma.pdf		estimate_mu_sigma.pdf
estimate_mu_sigma_.m		estimate_mu_sigma_.m
evaluateSSE.m		evaluateSSE.m
expectedNormalOrder.m		expectedNormalOrder.m
expectedNormalOrderArray.m		expectedNormalOrderArray.m
findAllPaths.m		findAllPaths.m
findConditional.m		findConditional.m
findInflectionMultipleThreshold.m		findInflectionMultipleThreshold.m
findInflectionPoints.m		findInflectionPoints.m
findInflectionPoints2ndOrder.m		findInflectionPoints2ndOrder.m
findJumpSizes.m		findJumpSizes.m
find_stats.m		find_stats.m
fit_curve_to_data.m		fit_curve_to_data.m
generateGenotypes.m		generateGenotypes.m
groupGenotypes.m		groupGenotypes.m
hammingMapFitness.m		hammingMapFitness.m
interesting-landscape.mat		interesting-landscape.mat
landscape_a_03_n_4.mat		landscape_a_03_n_4.mat
landscape_a_03_n_4_midpeak.mat		landscape_a_03_n_4_midpeak.mat
manual_landscape_n_6_mu_1_08.mat		manual_landscape_n_6_mu_1_08.mat
max_likelihood.m		max_likelihood.m
measureWigglyness.m		measureWigglyness.m
modelAdaptiveWalk.m		modelAdaptiveWalk.m
model_jumps.m		model_jumps.m
multiple_inflections.m		multiple_inflections.m
multiple_simulations.m		multiple_simulations.m
non_linear_optimise.m		non_linear_optimise.m
normalcdf.m		normalcdf.m
normalpdf.m		normalpdf.m
numGen_2800.mat		numGen_2800.mat
numGen_600.mat		numGen_600.mat
obj_func.m		obj_func.m
obj_func_2.asv		obj_func_2.asv
obj_func_2.m		obj_func_2.m
obj_func_3.m		obj_func_3.m
pathToFitness.m		pathToFitness.m
plotAdaptiveWalk.m		plotAdaptiveWalk.m
plotFitnessLandscape.m		plotFitnessLandscape.m
plotFitnessLandscapeGraph.m		plotFitnessLandscapeGraph.m
plotGenotype.m		plotGenotype.m
plotHistogram.m		plotHistogram.m
plotModelAdaptiveWalk.m		plotModelAdaptiveWalk.m
removeInflectionOutlier.m		removeInflectionOutlier.m
roughMountFuji.m		roughMountFuji.m
sampleNewGeneration.m		sampleNewGeneration.m
scribble.m		scribble.m
scribble2.m		scribble2.m
scribble3.asv		scribble3.asv
scribble3.m		scribble3.m
scribble4.m		scribble4.m
simulation_mu_1.1e-08_selective_0.9.mat		simulation_mu_1.1e-08_selective_0.9.mat
simulation_mu_1e-08_selective_0.7.mat		simulation_mu_1e-08_selective_0.7.mat
simulation_mu_1e-08_selective_0.9.mat		simulation_mu_1e-08_selective_0.9.mat
simulation_mu_1e-08_selective_1.mat		simulation_mu_1e-08_selective_1.mat
simulator.m		simulator.m
simulator2.m		simulator2.m
simulator3.m		simulator3.m
test-landscape.mat		test-landscape.mat
updateFrequency.m		updateFrequency.m

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4YP

University of Oxford, Department of Engineering Science

4th Year Project - Optimal Control of Directed Evolution

Supervisor: Harrison Steel

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4th Year Project - Optimal Control of Directed Evolution

approximate-bayesian-computation evolutionary-dynamics

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