All Classes and Interfaces

Class	Description
BlastAlignmentParameterEnum	Alignment request parameters accepted by QBlast service. Not all are mandatory.
BlastJob	Information about QBlast search job
BlastMatrixEnum	Enum representing matrices supported by QBlast
BlastOutputAlignmentFormatEnum	Enum representing available output alignment types.
BlastOutputFormatEnum	Enum representing available output formats.
BlastOutputParameterEnum	Output parameters accepted by QBlast service.
BlastProgramEnum	Enum representing available blast programs.
HmmerDemo	The cookbook recipe for how to request Pfam annotations for a protein sequence using the Hmmer3 service
HmmerDomain	Provides the details of a domain hit
HmmerResult	The results of a Hmmer search for a single sequence
HmmerScan	Interface for performing Hmmscans on sequences.
MapToStringTransformer	Transforms Map to String.
NCBIQBlastAlignmentProperties	This class wraps a QBlast search request parameter Map by adding several convenient parameter addition methods.
NCBIQBlastOutputProperties	This class wraps a QBlast output parameter Map by adding several convenient parameter addition methods.
NCBIQBlastService	Provides a simple way of submitting BLAST request to the QBlast service at NCBI.
NCBIQBlastServiceDemo	A simple demo showing NCBIQBlastService usage
RemoteHmmerScan	Makes remote calls to the HMMER web service at the EBI web site and returns Pfam domain annotations for an input protein sequence.
RemotePairwiseAlignmentOutputProperties	RemotePairwiseAlignmentOutputProperties: the simplest representation of an object capable of holding output formatting informations to be fed to a RemotePairwiseAlignmentService-implemented object.
RemotePairwiseAlignmentProperties	RemotePairwiseAlignmentProperties is a interface that contains the barest of methods for setting and getting Alignment properties.
RemotePairwiseAlignmentService	This interface specifies minimal information needed to execute a pairwise alignment on a remote service.