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@@ -1,34 +1,38 @@
+ * 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.
+ -->
Multiple Sequence Alignment Web Service
Multiple Sequence Alignment Web Services
-Multiple sequence alignment services can be accessed from either
-the Alignment or the JABAWS Alignment
-submenu of the Alignment Window's Web Service menu.
-When an entry from one of these menus is selected, either the currently
-selected residues, or the whole sequence set (if there is no selection
-or only one sequence is selected) will be submitted for multiple
-sequence alignment.
-There are two kinds of multiple sequence alignment operations
+
+ Multiple sequence alignment services are accessed from the Alignment
+ submenu of the Alignment Window's Web Service menu.
+ When an entry from one of these menus is selected, either the
+ currently selected residues, or the whole sequence set (if there is no
+ selection or only one sequence is selected) will be submitted for
+ multiple sequence alignment.
+
+ There are two kinds of multiple sequence alignment operations
available:
- alignment - where a new alignment is constructed from
@@ -37,9 +41,24 @@ available:
used by the service to construct a profile based alignment of the
remaining unaligned sequences.
-The JABAWS Alignment services also offer a
-range of predefined alignment settings and the opportunity for you to
-define your own set of parameters for running the alingment program.
+ JABAWS Alignment services
Most alignment services are
+ provided by the
+ JABAWS framework, which allows you to
+ customise the precise parameters used when running each alignment
+ prgoram. In addition to the 'Default settings', you may choose from a
+ range of alignment preset settings, or create your own using the
+ 'Edit Settings And Run ..' dialog
+ box.
+
+ Alignment programs supported by JABAWS.
Versions shown are those bundled with JABAWS 2.01 - if you are using a different server, check its home page to find out which versions are provided.
+
+
Multiple Alignments of Sequences with hidden
columns
Multiple alignment services are 'column separable' analysis operations.