Package | Description |
---|---|
eu.etaxonomy.cdm.api.service.molecular | |
eu.etaxonomy.cdm.model.molecular |
Provides classes for DNA samples and related sequences.
|
Modifier and Type | Method and Description |
---|---|
java.util.Map<SingleRead,java.util.Collection<Sequence>> |
ISequenceService.getSingleReadSequencesMap()
Creates and returns a map with
SingleRead s as keys. |
java.util.Map<SingleRead,java.util.Collection<Sequence>> |
SequenceServiceImpl.getSingleReadSequencesMap() |
Modifier and Type | Method and Description |
---|---|
DeleteResult |
ISequenceService.deleteSingleRead(SingleRead singleRead,
Sequence sequence)
|
DeleteResult |
SequenceServiceImpl.deleteSingleRead(SingleRead singleRead,
Sequence sequence) |
UpdateResult |
ISequenceService.moveSingleRead(Sequence from,
Sequence to,
SingleRead singleRead)
Moves the given
SingleRead from one Sequence to another. |
UpdateResult |
SequenceServiceImpl.moveSingleRead(Sequence from,
Sequence to,
SingleRead singleRead) |
Modifier and Type | Method and Description |
---|---|
SingleRead |
SingleReadAlignment.getSingleRead() |
static SingleRead |
SingleRead.NewInstance() |
Modifier and Type | Method and Description |
---|---|
java.util.Set<SingleRead> |
AmplificationResult.getSingleReads()
The
single sequences created by using this amplification's result (PCR). |
java.util.Set<SingleRead> |
Sequence.getSingleReads()
Convenience method that returns all single reads this consensus sequence
is based on via
SingleReadAlignment s. |
Modifier and Type | Method and Description |
---|---|
void |
AmplificationResult.addSingleRead(SingleRead singleRead) |
SingleReadAlignment |
Sequence.addSingleRead(SingleRead singleRead)
Convenience method to add a single read to a consensus sequence
by creating a
SingleReadAlignment . |
static SingleReadAlignment |
SingleReadAlignment.NewInstance(Sequence consensusSequence,
SingleRead singleRead) |
static SingleReadAlignment |
SingleReadAlignment.NewInstance(Sequence consensusSequence,
SingleRead singleRead,
SingleReadAlignment.Shift[] shifts,
java.lang.String editedSequence) |
static AmplificationResult |
AmplificationResult.NewInstance(SingleRead singleRead) |
void |
AmplificationResult.removeSingleRead(SingleRead singleRead) |
void |
Sequence.removeSingleRead(SingleRead singleRead) |
void |
SingleReadAlignment.setSingleRead(SingleRead singleRead) |
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