Web Service Menu

X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Fmenus%2Fwsmenu.html;h=cf5b1570baec7836896d6568a4804c7f37327116;hb=ad15cff29620f960119f80176f1fd443da9f6763;hp=a0449ad5dc06023b4e6f4cb831fc8e75266affb3;hpb=a45774ee31d9f35d4eff46d54d7deab719afb092;p=jalview.git diff --git a/help/html/menus/wsmenu.html b/help/html/menus/wsmenu.html index a0449ad..cf5b157 100755 --- a/help/html/menus/wsmenu.html +++ b/help/html/menus/wsmenu.html @@ -1,46 +1,53 @@ + * 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 Service Menu

Web Service Menu
This menu is dynamic, and may contain user-defined web service entries in addition to any of the following ones: -

Fetch DB References
This - will use any of the database services that Jalview is aware of - (e.g. DAS sequence servers and the WSDBFetch service provided by - the EBI) to verify the sequence and retrieve all database cross - references and PDB ids associated with all or just the selected - sequences in the alignment.
'Standard Databases' will check - sequences against the EBI databases plus any active DAS sequence - sources, or you can verify against a specific source from one of - the sub-menus.
Envision2 Services
Submits one or - more sequences, sequence IDs or database references 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 members of - ENFIN.

Selecting items from the following submenus will start a + +

Fetch DB References
This + submenu contains options for accessing any of the database services + that Jalview is aware of (e.g. DAS sequence servers and the + WSDBFetch service provided by the EBI) to verify sequence start/end + positions and retrieve all database cross references and PDB ids + associated with all or just the selected sequences in the alignment. +
+
'Retrieve full Sequence' - when checked, Jalview will + retrieve the full sequence for any accessions associated with + sequences in the alignment.
Note: This + could cause out of memory errors when working with genomic + sequence records !
Added in Jalview 2.8.1 +
+
'Standard Databases' will check sequences against the EBI + databases plus any active DAS sequence sources<
+
Other submenus allow you to pick a specific source to query - + sources are listed alphabetically according to their nickname. + +

Selecting items from the following submenus will start a remote service on compute facilities at the University of Dundee, or elsewhere. You need a continuous network connection in order to use these services through Jalview. @@ -78,10 +85,10 @@

Analysis

Sequence Harmony Multi-Relief
Performs +
Multi-Harmony
Performs functional residue analysis on a protein family alignment with sub-families defined on it. See the SHMR client entry for more + href="../webServices/shmr.html">Multi-Harmony service entry for more information.