| Modifier and Type | Class and Description |
|---|---|
class |
Range
This class represents a range of positions in a sequence (e.g.
|
| Modifier and Type | Class and Description |
|---|---|
class |
Alignment<S extends Sequence<S>> |
interface |
AlignmentScoring<S extends Sequence<S>>
AlignmentScoring - interface which is to be implemented by any scoring system
|
| Modifier and Type | Interface and Description |
|---|---|
interface |
BatchAlignerWithBaseParameters |
| Modifier and Type | Interface and Description |
|---|---|
interface |
SequenceRead |
| Modifier and Type | Class and Description |
|---|---|
class |
MergerParameters |
| Modifier and Type | Class and Description |
|---|---|
class |
Mutations<S extends Sequence<S>> |
| Modifier and Type | Class and Description |
|---|---|
class |
Alphabet<S extends Sequence<S>>
Interface for sequence letters alphabet (amino acid, nucleotide, etc.).
|
class |
NSequenceWithQuality
Container of nucleotide sequence with its quality.
|
class |
Sequence<S extends Sequence<S>>
Parent class for all types of sequences.
|
class |
SequenceQuality
Representation of nucleotide sequence quality based on phred quality scores.
|
| Modifier and Type | Class and Description |
|---|---|
class |
TreeSearchParameters |
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