C# Class LibiadaWeb.Models.SubsequenceExtractor

The subsequence extractor.

Show file Open project: intervals-mining-lab/libiada-web Class Usage Examples

Public Methods

Method	Description
ExtractChains ( Subsequence subsequences, long chainId ) : LibiadaCore.Core.Chain[]	The extract chains.
GetSubsequences ( long sequenceId, IEnumerable featureIds ) : Subsequence[]	The extract sequences.
GetSubsequences ( long sequenceId, IEnumerable featureIds, string filters ) : Subsequence[]	Extracts only filtered subsequences.
SubsequenceExtractor ( LibiadaWebEntities db ) : System.Collections.Generic	Initializes a new instance of the SubsequenceExtractor class.

Private Methods

Method	Description
ExtractJoinedSubsequence ( Bio.Sequence sourceSequence, Subsequence subsequence ) : Chain	Extracts joined subsequence.
ExtractJoinedSubsequenceWithComplement ( Bio.Sequence sourceSequence, Subsequence subsequence ) : Chain	Extracts joined subsequence with complement flag.
ExtractJoinedSubsequenceWithoutComplement ( Bio.Sequence sourceSequence, Subsequence subsequence ) : Chain	Extracts joined subsequence without complement flag.
ExtractSimpleSubsequence ( Bio.Sequence sourceSequence, Subsequence subsequence ) : Chain	Extracts subsequence without joins (additional positions).

Method Details

ExtractChains() public method

The extract chains.

public ExtractChains ( Subsequence subsequences, long chainId ) : LibiadaCore.Core.Chain[]
subsequences	Subsequence	/// The subsequences. ///
chainId	long	/// The sequence id. ///
return	LibiadaCore.Core.Chain[]

GetSubsequences() public method

The extract sequences.

public GetSubsequences ( long sequenceId, IEnumerable featureIds ) : Subsequence[]
sequenceId	long	/// The sequence id. ///
featureIds	IEnumerable	/// The feature ids. ///
return	Subsequence[]

GetSubsequences() public method

Extracts only filtered subsequences.

public GetSubsequences ( long sequenceId, IEnumerable featureIds, string filters ) : Subsequence[]
sequenceId	long	/// Sequences id. ///
featureIds	IEnumerable	/// Subsequences features. ///
filters	string	/// Filters for the subsequences. /// Filters are applied in "OR" logic (if subseqence corresponds to any filter it is added to calculation). ///
return	Subsequence[]

SubsequenceExtractor() public method

Initializes a new instance of the SubsequenceExtractor class.

public SubsequenceExtractor ( LibiadaWebEntities db ) : System.Collections.Generic
db	LibiadaWebEntities	/// The db. ///
return	System.Collections.Generic