Uses of Class
compbio.data.sequence.Alignment

Packages that use Alignment

compbio.data.msa	Web Service interfaces for JAva Bioinformatics Analysis Web Services.
compbio.data.sequence	A data model for multiple sequence alignment web services and utility methods that work on the objects of this model.

Uses of Alignment in compbio.data.msa

Methods in compbio.data.msa that return Alignment

Alignment

MsaWS.getResult(String jobId) Return the result of the job.

Uses of Alignment in compbio.data.sequence

Methods in compbio.data.sequence that return Alignment

static Alignment	ClustalAlignmentUtil.readClustalFile(File file)
static Alignment	ClustalAlignmentUtil.readClustalFile(InputStream instream) Read Clustal formatted alignment.

Methods in compbio.data.sequence with parameters of type Alignment

static void

ClustalAlignmentUtil.writeClustalAlignment(OutputStream outStream, Alignment alignment) Write Clustal formatted alignment Limitations: does not record the consensus.