+Uses of Class compbio.data.sequence.Alignment +

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=7855bee72d0ee131d5f92e77ba7213eee7ad43f7;hb=da8c820a7fb2edecb190589f3dc9c362e57a2f24;hp=0000000000000000000000000000000000000000;hpb=0bbebf27d045b1345bc042bdf24ef2e6808df251;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..7855bee --- /dev/null +++ b/website/dm_javadoc/compbio/data/sequence/class-use/Alignment.html @@ -0,0 +1,281 @@ + + + + + + +Uses of Class compbio.data.sequence.Alignment + + + + + + + + + + + + +

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+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.msa.jaxws
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(java.lang.String jobId) + +
+ Return the result of the job.
+ +

Methods in compbio.data.msa that return Alignment
+ `Alignment`	`MsaWS.getResult(java.lang.String jobId)` + + + Return the result of the job.

+ + + + + +
+Uses of Alignment in compbio.data.msa.jaxws
+ +

+ + + + + + + + + +
Methods in compbio.data.msa.jaxws that return Alignment
+ Alignment GetResultResponse.getReturn() + +
+
+ +

Methods in compbio.data.msa.jaxws that return Alignment
+ `Alignment`	`GetResultResponse.getReturn()` + + +

+ + + + + + + + + +
Methods in compbio.data.msa.jaxws with parameters of type Alignment
+ void GetResultResponse.setReturn(Alignment _return) + +
+
+ +

Methods in compbio.data.msa.jaxws with parameters of type Alignment
+ `void`	`GetResultResponse.setReturn(Alignment _return)` + + +

+ + + + + +
+Uses of Alignment in compbio.data.sequence
+ +

+ + + + + + + + + + + + + +
Methods in compbio.data.sequence that return Alignment
+static Alignment ClustalAlignmentUtil.readClustalFile(java.io.File file) + +
+
+static Alignment ClustalAlignmentUtil.readClustalFile(java.io.InputStream instream) + +
+ Read Clustal formatted alignment.
+ +

Methods in compbio.data.sequence that return Alignment
+`static Alignment`	`ClustalAlignmentUtil.readClustalFile(java.io.File file)` + + +
+`static Alignment`	`ClustalAlignmentUtil.readClustalFile(java.io.InputStream instream)` + + + Read Clustal formatted alignment.

+ + + + + + + + + +
Methods in compbio.data.sequence with parameters of type Alignment
+static void ClustalAlignmentUtil.writeClustalAlignment(java.io.Writer out, + Alignment alignment) + +
+ Write Clustal formatted alignment Limitations: does not record the + consensus.
+ +

Methods in compbio.data.sequence with parameters of type Alignment
+`static void`	`ClustalAlignmentUtil.writeClustalAlignment(java.io.Writer out, + Alignment alignment)` + + + Write Clustal formatted alignment Limitations: does not record the + consensus.