Web Services

X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FwebServices%2Findex.html;h=fd2584a3282c8b3cac46334d87458f4f48f509c8;hb=17e77c3f2949a0729322b4a8d907f3f34b6a9914;hp=820d90b5aa389a19c2cd44f89c24db94ced08fa7;hpb=a45774ee31d9f35d4eff46d54d7deab719afb092;p=jalview.git diff --git a/help/html/webServices/index.html b/help/html/webServices/index.html index 820d90b..fd2584a 100755 --- a/help/html/webServices/index.html +++ b/help/html/webServices/index.html @@ -1,97 +1,98 @@ - + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + --> Web Services -

- Web services -

+ Web services +

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 DAS Feature - Fetcher enables the retrieval and visualization of features from DAS - annotation sources
The Database Reference - Fetcher transfers database references from records available from - DAS or 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). -

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 DAS Feature + Fetcher enables the retrieval and visualization of features from + DAS annotation sources +
The Database Reference + Fetcher transfers database references from records available + from DAS or 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 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. +
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. +