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biomobyenglish [2008/04/14 06:57]
gaou
biomobyenglish [2014/01/18 07:44]
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-====== Using BioMOBY Web Services from G-language GAE ====== 
- 
-You can search for web services by  
- 
-  help -w 
- 
-in G-language Shell, just like searching for other documentations. 
- 
-For example, searching for web services related to KEGG gives the following: 
- 
-<​code>​ 
-  G > help -w kegg 
-      Found keyword "​kegg"​ in the following web services (13 hits). 
-  ​ 
- ​RINGStest ​                         : Testing the query for a KEGG Glycan ID given a KCF... 
- ​convertIdentifier2KeggID ​          : This service consumes an identifier from the follo... 
- ​convertKeggGeneId2PDBId ​           : This service consumes an identifier under the KEGG... 
- ​convertKeggGeneId2ProtId ​          : This service consumes an identifier under the KEGG... 
- ​getColoredKeggPathwayOfKeggIds ​    : This service takes as input a KEGG pathway and KEG... 
- ​getKeggCompoundsOnKeggPathway ​     : This service, given a KEGG pathway, searches for a... 
- ​getKeggIdsByKeggPathway ​           : This service, given a KEGG pathway, searches for a... 
- ​getKeggPathwayAsGif ​               : This service, given a KEGG pathway, returns a Gif ... 
- ​getKeggPathwaysByKeggID ​           : This service, given a KEGG identifier, attempts to... 
- ​getPubChemSubstanceIdByKeggCompound:​ This service, given a KEGG compound, returns the a... 
- ​getUniprotDescriptorsByKeyword ​    : Gets the uniprot identifier and description from a... 
- ​getUniprotIdentifierByGeneName ​    : This service takes in a gene name, as an identifie... 
- ​getUniprotIdentifiersByKeyword ​    : Gets uniprot identifiers by keyword using the bfin... 
-</​code>​ 
- 
-Descriptions of the service can be browsed by giving service name to help -w 
- 
-<​code>​ 
-G > help -w getKeggPathwayAsGif 
-  ​ 
-   Name: getKeggPathwayAsGif 
-  ​ 
-   ​Description:​ 
-       This service, given a KEGG pathway, returns a Gif image of the pathway if it exists. 
-       For example, the <Object, KEGG_PATHWAY,​ '​hsa00053'​) 
-       ​returns a diagram of the pathway '​ASCORBATE AND ALDRATE METABOLISM'​. 
-  ​ 
-  ​ 
-   ​Input:​ 
-       ​pathway 
-                    Object: ​  ​Object 
-                 ​Namespace: ​  ​KEGG_PATHWAY 
-  ​ 
-  Output: 
-       image 
-                    Object: ​  ​b64_encoded_gif 
-                 ​Namespace:​ 
-  ​ 
-  Authority : bioinfo.icapture.ubc.ca 
-  Contact ​  : ekawas@mrl.ubc.ca 
-  Type      : Conversion 
-  Category ​ : moby 
-  URL       : http://​bioinfo.icapture.ubc.ca:​8090/​mobyservices/​services/​getKeggPathwayAsGif 
-  LSID      : urn:​lsid:​biomoby.org:​serviceinstance:​bioinfo.icapture.ubc.ca,​getKeggPathwayAsGif:​ 
-                2007-12-03T19-38-05Z 
-</​code>​ 
- 
-To run the service, use ws() as follows: 
- 
-<code perl> 
-  ws("​getKeggPathwayAsGif",​ '​hsa00053'​=>'​KEGG_PATHWAY'​);​ 
-</​code>​ 
  
biomobyenglish.txt ยท Last modified: 2014/01/18 07:44 (external edit)