Uses of Interface
org.biojavax.bio.alignment.RemotePairwiseAlignmentProperties
Packages that use RemotePairwiseAlignmentProperties
Package
Description
This package contains the interfaces that need to be implemented by discrete alignment services.
This package holds implementations of the org.biojava3.ws.alignment interfaces for the NCBI remote QBlast services
through the WWW.
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Uses of RemotePairwiseAlignmentProperties in org.biojavax.bio.alignment
Methods in org.biojavax.bio.alignment with parameters of type RemotePairwiseAlignmentPropertiesModifier and TypeMethodDescriptionRemotePairwiseAlignmentService.sendAlignmentRequest
(String str, RemotePairwiseAlignmentProperties rpa) Doing the actual analysis on the instantiated service using specified parameters on the string representation of the Sequence objectRemotePairwiseAlignmentService.sendAlignmentRequest
(RichSequence rs, RemotePairwiseAlignmentProperties rpa) Doing the actual analysis on the instantiated service using specified parameters and the RichSequence object -
Uses of RemotePairwiseAlignmentProperties in org.biojavax.bio.alignment.blast
Classes in org.biojavax.bio.alignment.blast that implement RemotePairwiseAlignmentPropertiesModifier and TypeClassDescriptionclass
This class implements RemotePairwiseAlignmentProperties by specifying several convenient methods used to wrap the addition of Blast alignment parameters.Methods in org.biojavax.bio.alignment.blast with parameters of type RemotePairwiseAlignmentPropertiesModifier and TypeMethodDescriptionRemoteQBlastService.sendAlignmentRequest
(int gid, RemotePairwiseAlignmentProperties rpa) This method is a wrapper that executes the Blast request via the Put command of the CGI-BIN interface with the specified parameters and a GenBank GID.RemoteQBlastService.sendAlignmentRequest
(String str, RemotePairwiseAlignmentProperties rpa) This method is a wrapper that executes the Blast request via the Put command of the CGI-BIN interface with the specified parameters and a string representing the sequence.RemoteQBlastService.sendAlignmentRequest
(RichSequence rs, RemotePairwiseAlignmentProperties rpa) This method is a wrapper that executes the Blast request via the Put command of the CGI-BIN interface with the specified parameters and a RichSequence.