Package | Description |
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com.compomics.util.experiment.biology.mutations |
Experiment classes related to mutations.
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com.compomics.util.preferences |
Utilities preferences classes.
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Modifier and Type | Field and Description |
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static MutationMatrix[] |
MutationMatrix.defaultMutationMatrices
Returns the implemented default mutation matrices.
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static MutationMatrix |
MutationMatrix.singleBaseSubstitution
Mutation matrix allowing for a single base mutation.
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static MutationMatrix |
MutationMatrix.synonymousMutation
Mutation matrix grouping synonymous amino acids.
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static MutationMatrix |
MutationMatrix.transitionsSingleBaseSubstitution
Mutation matrix allowing for a single base transitions mutation.
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static MutationMatrix |
MutationMatrix.transversalSingleBaseSubstitution
Mutation matrix allowing for a single base transversion mutation.
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Modifier and Type | Method and Description |
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void |
MutationMatrix.add(MutationMatrix otherMatrix)
Adds the content of a mutation matrix in this matrix.
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boolean |
MutationMatrix.isSameAs(MutationMatrix mutationMatrix)
Indicates whether the two MutationMatrix are the same.
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Modifier and Type | Method and Description |
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MutationMatrix |
SequenceMatchingPreferences.getMutationMatrix()
Returns the mutation matrix to use.
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Modifier and Type | Method and Description |
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void |
SequenceMatchingPreferences.setMutationMatrix(MutationMatrix mutationMatrix)
Sets the mutation matrix to use.
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