Package | Description |
---|---|
com.compomics.util.experiment.biology |
This package contains experiement classes related to biological entities.
|
com.compomics.util.experiment.identification |
This package contains experiment classes related to identifications.
|
com.compomics.util.protein |
The classes in this package concern useful Objects and their
operations for modelling and handling proteins.
|
Modifier and Type | Method and Description |
---|---|
Header.DatabaseType |
Protein.getDatabaseType()
Getter for the protein database type.
|
Constructor and Description |
---|
Protein(java.lang.String accession,
Header.DatabaseType databaseType,
java.lang.String sequence,
boolean isDecoy)
Constructor for a protein.
|
Modifier and Type | Method and Description |
---|---|
Header.DatabaseType |
FastaIndex.getDatabaseType()
Indicates the database type.
|
Modifier and Type | Method and Description |
---|---|
void |
FastaIndex.setDatabaseType(Header.DatabaseType databaseType)
Sets the database type.
|
Constructor and Description |
---|
FastaIndex(java.util.HashMap<java.lang.String,java.lang.Long> indexes,
java.lang.String fileName,
java.lang.String name,
boolean concatenatedTargetDecoy,
boolean isDefaultReversed,
int nTarget,
long lastModified,
Header.DatabaseType databaseType,
java.lang.String decoyTag,
java.lang.String version)
Constructor.
|
Modifier and Type | Method and Description |
---|---|
Header.DatabaseType |
Header.getDatabaseType() |
static Header.DatabaseType |
Header.DatabaseType.valueOf(java.lang.String name)
Returns the enum constant of this type with the specified name.
|
static Header.DatabaseType[] |
Header.DatabaseType.values()
Returns an array containing the constants of this enum type, in
the order they are declared.
|
Modifier and Type | Method and Description |
---|---|
static java.lang.String |
Header.getDatabaseTypeAsString(Header.DatabaseType databaseType)
Convenience method returning the database name as a String.
|
void |
Header.setDatabaseType(Header.DatabaseType aDatabaseType) |
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