|
|||||||||||
PREV NEXT | FRAMES NO FRAMES |
Packages that use edu.uconn.mcb.lineageevolver | |
edu.uconn.mcb.lineageevolver | Provides all basic, universal LineageEvolver classes directly, and serves as a parent for all other LineageEvolver packages. |
edu.uconn.mcb.lineageevolver.config | This package provides configuration interfaces and classes. |
edu.uconn.mcb.lineageevolver.graph | Provides graph data structure interface and implementation. |
Classes in edu.uconn.mcb.lineageevolver used by edu.uconn.mcb.lineageevolver | |
AATranslator.InvalidAminoAcid
Base class for exceptions generated during amino acid encoding/decoding. |
|
AminoAcid
Common interface for models of amino acids. |
|
ByteAminoAcid
Amino Acid implementation using byte datatype. |
|
Gene
Common interface for models of genes. |
|
Genome
Model of Genomes, composed of a collection of Genes. |
|
Genome.NoHGTProcessed
Exception thrown when hgt was not processed within a reasonable timeframe. |
|
GenomeVisitor
Abstract class for all visitors meant exclusively for Genomes. |
|
Lineage.HGTDenied
Exception thrown when HGT failed a reasonable number of times. |
|
LineageVisitor
Abstract base class for all Visitors intended specifically to visit Lineages. |
|
Recombiner
Intermediary class encapsulating the recombination process between two genes. |
|
Recombiner.NoRecombineRegion
Exception thrown when no region suitable for recombination could be found. |
|
Substitutable
Common interface for modelling substitutable elements. |
|
SubstitutionMatrix
Common interface for all substitution matrices. |
Classes in edu.uconn.mcb.lineageevolver used by edu.uconn.mcb.lineageevolver.config | |
Genome
Model of Genomes, composed of a collection of Genes. |
Classes in edu.uconn.mcb.lineageevolver used by edu.uconn.mcb.lineageevolver.graph | |
Genome
Model of Genomes, composed of a collection of Genes. |
|
GenomeVisitor
Abstract class for all visitors meant exclusively for Genomes. |
|
Lineage
Model of Lineages comprised of a collection of Genomes. |
|
LineageVisitor
Abstract base class for all Visitors intended specifically to visit Lineages. |
|
|||||||||||
PREV NEXT | FRAMES NO FRAMES |