X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=website%2Fdm_javadoc%2Findex-files%2Findex-1.html;h=ea7a39ca25c81ce499d1c41c0fbbb09f05fe718f;hb=faac303bf9ad8c17b71a55d23b7a2c0a9e6e2efa;hp=70eb3805049734cecb85f93d33489080f90e8458;hpb=535359a3d592ee41bda72e7356f0181f6cee9d07;p=jabaws.git
diff --git a/website/dm_javadoc/index-files/index-1.html b/website/dm_javadoc/index-files/index-1.html
index 70eb380..ea7a39c 100644
--- a/website/dm_javadoc/index-files/index-1.html
+++ b/website/dm_javadoc/index-files/index-1.html
@@ -2,12 +2,12 @@
-
+
A-Index
-
+
@@ -85,9 +85,12 @@ function windowTitle()
AA -
Static variable in class compbio.data.sequence.SequenceUtil
Valid Amino acids
-addOption(Option<T>) -
-Method in class compbio.metadata.RunnerConfig
+AACON_INFO -
+Static variable in enum compbio.ws.client.Services
+AAConClient - Class in compbio.ws.clientA command line client for AACon web serviceaddOption(Option<T>) -
+Method in class compbio.metadata.RunnerConfig
+Adds Option to the internal list of options
addOptionNames(String...) -
Method in class compbio.metadata.Option
Adds an option to the optionName list
@@ -96,10 +99,16 @@ Method in class compbio.metadata.
addParameter(Parameter<T>) -
Method in class compbio.metadata.RunnerConfig
-
+Adds parameter to the internal parameter list
addPossibleValues(String...) -
Method in class compbio.metadata.Parameter
+Align - Class in compbio.data.msa.jaxws Align() -
+Constructor for class compbio.data.msa.jaxws.Align
+
+align(List<FastaSequence>) -
+Method in interface compbio.data.msa.MsaWS
+Align a list of sequences with default settings.
Alignment - Class in compbio.data.sequenceMultiple sequence alignment.Alignment(List<FastaSequence>, Program, char) -
Constructor for class compbio.data.sequence.Alignment
@@ -109,14 +118,32 @@ Constructor for class compbio.data.sequence.AlignmentMetadata - Class in compbio.data.sequenceAlignment metadata e.g.AlignmentMetadata(Program, char) -
Constructor for class compbio.data.sequence.AlignmentMetadata
+AlignResponse - Class in compbio.data.msa.jaxws AlignResponse() -
+Constructor for class compbio.data.msa.jaxws.AlignResponse
+
AMBIGUOUS_AA -
Static variable in class compbio.data.sequence.SequenceUtil
Same as AA pattern but with two additional letters - XU
AMBIGUOUS_NUCLEOTIDE -
Static variable in class compbio.data.sequence.SequenceUtil
Ambiguous nucleotide
+Analize - Class in compbio.data.msa.jaxws Analize() -
+Constructor for class compbio.data.msa.jaxws.Analize
+
+analize(List<FastaSequence>) -
+Method in interface compbio.data.msa.SequenceAnnotation
+Analyse the sequences.
+AnalizeResponse - Class in compbio.data.msa.jaxws AnalizeResponse() -
+Constructor for class compbio.data.msa.jaxws.AnalizeResponse
+
Argument<T> - Interface in compbio.metadataAn unmodifiable view for the options and parameters, with one exception - it
- allows to set a value
+ allows to set a valueasMap() -
+Method in class compbio.data.sequence.ScoreManager
+
+asSet() -
+Method in class compbio.data.sequence.ScoreManager
+
+