Web Service Menu

X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Fmenus%2Fwsmenu.html;h=e18e273bc6e63d17a8266460e4a4915b193850f3;hb=6ab4ef1cc71ff9d28a21a139db69e4a8351a3fb5;hp=9dbfe8136f5a9df38deb7b57c59ecc1f86b6d142;hpb=d46f2f52b52c1495b92707ab6ad520bb1e465d5e;p=jalview.git diff --git a/help/html/menus/wsmenu.html b/help/html/menus/wsmenu.html index 9dbfe81..e18e273 100755 --- a/help/html/menus/wsmenu.html +++ b/help/html/menus/wsmenu.html @@ -1,49 +1,18 @@ - -Web Service Menu - - -

Web Service Menu

- Selecting one of the following menu items starts a remote service - on compute facilities at the University of Dundee. You need a continuous network - connection in order to use these services through Jalview.

Alignment -
- ClustalW Multiple Sequence Alignment
  - Submits all, or just the currently selected sequences for alignment - with clustal W.
- ClustalW Multiple Sequence Alignment Realign
  - Submits the alignment or currently selected region for re-alignment - with clustal W. Use this if you have added some new sequences to an existing - alignment.
- MAFFT Multiple Sequence Alignment
  - Submits all, or just the currently selected region for alignment with - MAFFT.
- Muscle Multiple Protein Sequence Alignment
  - Submits all, or just the currently selected sequences for alignment - using Muscle. Do not use this if you are working with nucleic acid sequences.
-
Secondary Structure Prediction -
- JPred Secondary Structure Prediction
  - Secondary structure prediction by network consensus. The behaviour - of this calculation depends on the current selection:
- If nothing is selected, and the displayed sequences appear to be - aligned, then a JNet prediction will be run for the first sequence in - the alignment, using the current alignment. Otherwise the first sequence - will be submitted for prediction.
- If just one sequence (or a region on one sequence) has been selected, - it will be submitted to the automatic JNet prediction server for homolog - detection and prediction.
- If a set of sequences are selected, and they appear to be aligned, - then the alignment will be used for a Jnet prediction on the first - sequence in the set (that is, the one that appears first in the alignment - window).
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