Jalview includes clients for a variety of web services for both + bioinformatic data retrieval and analysis. +
-
+
- The Sequence + Fetcher utilises web services for sequence, alignment and + structure retrieval provided by the European Bioinformatics + Institute (EBI) and Distributed Annotation System servers that are + capable of serving sequences. +
- The Database Reference - Fetcher transfers database references from records available from - DAS or the public sequence databases. + Fetcher transfers database references and annotation from the public + sequence databases. +
- The Web Services menu in each alignment
- window also provides access to the following:
-
-
-
- Programs for multiple sequence - alignment, made available via Java - Bioinformatic Analysis Web Service (JABAWS) servers. -
- Jalview SOAP Web Services for secondary - structure prediction based at the University of Dundee. -
- Services for alignment analysis, such as Sequence Harmony Multi Relief. -
- Services for submitting IDs and sequences to external - bioinformatics services such as Envision2 (see below). -
- Web Service Dialog Box -
- This dialog box is displayed when a web service job is - submitted. It gives the name of the service and any method citation - information, and monitors the progress of the calculation. The - cancel button will permanently cancel the job, but this is only - possible for some services.
The Web - Services Preference panel controls the display and appearance of the - submission and analysis services in the Web Services - menu.
- - If Jalview encounters problems accessing any services, it may - display a warning - dialog box (this can be turned off using the web services - preferences tab). -
- More about Jalview's Web Services
Jalview's
- distributed computations utilise SOAP and REST
- web services exposing sequence alignment, analysis, and secondary
- structure prediction programs. Originally, Jalview 2's services were
- maintained by the Barton group at the University of Dundee, and ran
- programs on the Life Sciences High-performace Computing Cluster. With
- the advent of JABAWS,
- however, it is possible for anyone to host Jalview web services.
-
- Envision2 Services - -
-- Since version 2.5, Jalview has included a client to enable the user to - submit one or more sequences or sequence IDs to analysis workflows - provided by the EnVision2 - web application. This allows Jalview users to easily access the - EnCore network of databases and analysis services developed by ENFIN (www.enfin.org). -
+ window also provides access to the following: +-
+
- Programs for multiple + sequence alignment, made available via Java Bioinformatic Analysis + Web Service (JABAWS) servers. + +
- Jalview SOAP Web Services for secondary + structure prediction based at the University of Dundee. + +
- Services for alignment analysis, such as Multi-Harmony. +
+ Web Service Dialog Box +
+ This dialog box is displayed when a web service job is + submitted. It gives the name of the service and any method + citation information, and monitors the progress of the + calculation. The cancel button will permanently cancel the job, + but this is only possible for some services.
The Web Services Preference + panel controls the display and appearance of the submission and + analysis services in the Web Services menu. + +