BioSequenceTypeRelated Interpreter »
Alphabets and relationships between letters that allow strings to represent biological sequences.
represents an entity of type "BioSequenceType".
gives the value of a specified property.
gives the value of a list of properties.
AdditionalBondTypes additional bond types AllowedBondingCardinalityRules allowed bonding cardinality rules AllowedBondingRules allowed bonding rules Alphabet alphabet AlphabetRules alphabet rules AlternateEncodingRules alternate encoding rules BondTypes all associated bond types Caption caption CircularQ circular ComplementLetterRules complement letter rules DegenerateAlphabet degenerate alphabet DegenerateLetterRules degenerate letter rules FullAlphabet all letters Name name PrimaryStructureBondType primary structure bond type
- "BioSequenceType" entities include the standardized alphabets most commonly used in biological sequence processing.
- Some properties are available for the "BioSequenceType" entity type as a whole and can be given using the form EntityValue["BioSequenceType",property]. Such properties include:
"Properties" the list of available properties "PropertyCanonicalNames" the standard names of available properties "SampleEntities" a sample list of available entities (typically of length 10) "SampleEntityClasses" a sample list of available entity classes (typically of length 10) "EntityCount" number of entities available "Entities" the list of available entities "EntityCanonicalNames" the standard names of available entities "EntityClasses" the list of available entity classes "EntityClassCanonicalNames" the standard names of available entity classes "PropertyClasses" the list of available property classes "PropertyClassCanonicalNames" the standard names of available property classes "PropertyCount" number of properties available
- The following annotations can be used in the third argument of EntityValue["BioSequenceType",property,annotation]:
"Source" source information for the property "Date" the date associated with the entity-property value (if any) "EntityAssociation" an association of entities and entity-property values "PropertyAssociation" an association of properties and entity-property values "EntityPropertyAssociation" an association in which the specified entities are keys, and values are a nested association of properties and entity-property values "PropertyEntityAssociation" an association in which the specified properties are keys, and values are a nested association of entities and entity-property values "Dataset" a dataset in which the specified entities are keys, and values are an association of property names and entity-property values
- The following annotations can be used in the second argument of EntityValue[property,annotation]:
"Qualifiers" the list of possible qualifiers for the property "QualifierValues" the list of possible values that can be given to each qualifier "DefaultQualifierValues" the list of default values for the property's qualifiers "Description" a brief textual description of the property "Definition" a detailed textual definition of the property "PhysicalQuantity" the physical quantity associated with the entity-property value "Unit" the unit associated with the entity-property value
- A qualifier value of Automatic indicates that an applicable format of values can be used; e.g. for the "Date" qualifier, this includes a proper date or date span.
Examplesopen allclose all
Basic Examples (3)
"BioSequenceType" entities can be used to construct BioSequence expressions:
The type of any BioSequence object is a BioSequenceType entity: