X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=website%2Fdm_javadoc%2Fcompbio%2Fdata%2Fsequence%2Fclass-use%2FAlignment.html;fp=website%2Fdm_javadoc%2Fcompbio%2Fdata%2Fsequence%2Fclass-use%2FAlignment.html;h=05b6478c7d8cf50bc40c4c81f6e589d5bc16add4;hb=6582e82919b0d3697fe5e96f1be6a369f90a2d93;hp=0000000000000000000000000000000000000000;hpb=81078aca485c1c507b6b2e497050a08e5f4635cb;p=jabaws.git diff --git a/website/dm_javadoc/compbio/data/sequence/class-use/Alignment.html b/website/dm_javadoc/compbio/data/sequence/class-use/Alignment.html new file mode 100644 index 0000000..05b6478 --- /dev/null +++ b/website/dm_javadoc/compbio/data/sequence/class-use/Alignment.html @@ -0,0 +1,236 @@ + + + + + + +Uses of Class compbio.data.sequence.Alignment + + + + + + + + + + + + +
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+Uses of Class
compbio.data.sequence.Alignment

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+Packages that use Alignment
compbio.data.msaWeb Service interfaces for JAva Bioinformatics Analysis Web Services. 
compbio.data.sequenceA 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
+  +

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Methods in compbio.data.msa that return Alignment
+ AlignmentMsaWS.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 AlignmentClustalAlignmentUtil.readClustalFile(File file) + +
+           
+static AlignmentClustalAlignmentUtil.readClustalFile(InputStream instream) + +
+          Read Clustal formatted alignment.
+  +

+ + + + + + + + + +
Methods in compbio.data.sequence with parameters of type Alignment
+static voidClustalAlignmentUtil.writeClustalAlignment(OutputStream outStream, + Alignment alignment) + +
+          Write Clustal formatted alignment Limitations: does not record the + consensus.
+  +

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