public void MutatorTest1()
{
Organism organism = new Organism();
organism.Chromosomes.Add(new Chromosome(1, "10"));
MutationCounter mutator = new MutationCounter();
mutator.Mutate(organism);
mutator.Mutate(organism);
mutator.Mutate(organism);
mutator.Mutate(organism);
Assert.AreEqual(4, mutator.MutationCount);
Assert.AreEqual("10", organism.Chromosomes[0].ToString());
}
public void GetMutationCategory()
{
var v = new VcfVariant();
v.ReferenceAllele = "A";
v.VariantAlleles = new string[] { "C" };
Assert.Equal(MutationCategory.AtoC, MutationCounter.GetMutationCategory(v));
v.ReferenceAllele = "G";
v.VariantAlleles = new string[] { "T" };
Assert.Equal(MutationCategory.GtoT, MutationCounter.GetMutationCategory(v));
v.ReferenceAllele = "A";
v.VariantAlleles = new string[] { "c" };
Assert.Equal(MutationCategory.AtoC, MutationCounter.GetMutationCategory(v));
v.ReferenceAllele = "g";
v.VariantAlleles = new string[] { "t" };
Assert.Equal(MutationCategory.GtoT, MutationCounter.GetMutationCategory(v));
v.ReferenceAllele = "G";
v.VariantAlleles = new string[] { "t" };
Assert.Equal(MutationCategory.GtoT, MutationCounter.GetMutationCategory(v));
v.ReferenceAllele = "G";
v.VariantAlleles = new string[] { "TT" };
Assert.Equal(MutationCategory.Insertion, MutationCounter.GetMutationCategory(v));
v.ReferenceAllele = "GGG";
v.VariantAlleles = new string[] { "T" };
Assert.Equal(MutationCategory.Deletion, MutationCounter.GetMutationCategory(v));
v.ReferenceAllele = "GG";
v.VariantAlleles = new string[] { "TZ" };
Assert.Equal(MutationCategory.Other, MutationCounter.GetMutationCategory(v));
v.ReferenceAllele = "G";
v.VariantAlleles = new string[] { "G" };
Assert.Equal(MutationCategory.Reference, MutationCounter.GetMutationCategory(v));
v.ReferenceAllele = "G";
v.VariantAlleles = new string[] { "." };
Assert.Equal(MutationCategory.Reference, MutationCounter.GetMutationCategory(v));
}
public void GetMutationCategory_VariantInput()
{
var v = MakeDummyAllele("A", "C");
Assert.Equal(MutationCategory.AtoC, MutationCounter.GetMutationCategory(v));
v = MakeDummyAllele("G", "T");
Assert.Equal(MutationCategory.GtoT, MutationCounter.GetMutationCategory(v));
v = MakeDummyAllele("A", "c");
Assert.Equal(MutationCategory.AtoC, MutationCounter.GetMutationCategory(v));
v = MakeDummyAllele("G", "t");
Assert.Equal(MutationCategory.GtoT, MutationCounter.GetMutationCategory(v));
v = MakeDummyAllele("G", "t");
Assert.Equal(MutationCategory.GtoT, MutationCounter.GetMutationCategory(v));
v = MakeDummyAllele("G", "TT");
Assert.Equal(MutationCategory.Insertion, MutationCounter.GetMutationCategory(v));
v = MakeDummyAllele("GGG", "T");
Assert.Equal(MutationCategory.Deletion, MutationCounter.GetMutationCategory(v));
v = MakeDummyAllele("GG", "TZ");
Assert.Equal(MutationCategory.Other, MutationCounter.GetMutationCategory(v));
v = MakeDummyAllele("G", "G");
Assert.Equal(MutationCategory.Reference, MutationCounter.GetMutationCategory(v));
v = MakeDummyAllele("G", "g");
Assert.Equal(MutationCategory.Reference, MutationCounter.GetMutationCategory(v));
v = MakeDummyAllele("g", "G");
Assert.Equal(MutationCategory.Reference, MutationCounter.GetMutationCategory(v));
v = MakeDummyAllele("g", "g");
Assert.Equal(MutationCategory.Reference, MutationCounter.GetMutationCategory(v));
v = MakeDummyAllele("G", ".");
Assert.Equal(MutationCategory.Reference, MutationCategoryUtil.GetMutationCategory(v));
}
public void MutatorTest4()
{
Organism organism = new Organism();
organism.Chromosomes.Add(new Chromosome(1, "10"));
int runCount = 100000;
double mutationProbability = 0;
MutationCounter mutator = new MutationCounter();
IRandom rand = new Rand();
Mutator mutationManager = new Mutator(rand, mutationProbability);
mutationManager.AddMutator(mutator);
for (int i = 0; i <= runCount - 1; i++)
{
mutationManager.Mutate(organism);
}
Assert.AreEqual(0, mutator.MutationCount);
Assert.AreEqual("10", organism.Chromosomes[0].ToString());
}
public void MutatorTest4()
{
Organism organism = new Organism();
organism.Chromosomes.Add(new Chromosome(1, "10"));
int runCount = 100000;
double mutationProbability = 0;
MutationCounter mutator = new MutationCounter();
IRandom rand = new Rand();
Mutator mutationManager = new Mutator(rand, mutationProbability);
mutationManager.AddMutator(mutator);
for (int i = 0; i <= runCount - 1; i++) {
mutationManager.Mutate(organism);
}
Assert.AreEqual(0, mutator.MutationCount);
Assert.AreEqual("10", organism.Chromosomes[0].ToString());
}
public void MutatorTest1()
{
Organism organism = new Organism();
organism.Chromosomes.Add(new Chromosome(1, "10"));
MutationCounter mutator = new MutationCounter();
mutator.Mutate(organism);
mutator.Mutate(organism);
mutator.Mutate(organism);
mutator.Mutate(organism);
Assert.AreEqual(4, mutator.MutationCount);
Assert.AreEqual("10", organism.Chromosomes[0].ToString());
}
