X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FwebServices%2Fmsaclient.html;h=2564459969b64313a14208bfa13e58520c66df65;hb=c19d2a91ca05e052e3408bf5852d88eb5d0608f1;hp=3e6c3cb57b05d4077a20945a3179cd2338527319;hpb=721a650185138574d75e548b3e1f81113034ff45;p=jalview.git diff --git a/help/html/webServices/msaclient.html b/help/html/webServices/msaclient.html index 3e6c3cb..2564459 100644 --- a/help/html/webServices/msaclient.html +++ b/help/html/webServices/msaclient.html @@ -1,75 +1,94 @@ + * 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 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: -

- 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 Sequence Alignment Web Services +

+ 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: +

+ 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. -If the input contains hidden -columns then each visible segment of the input sequence set will be -submitted for alignment separately, and the results concatenated (with -the hidden regions preserved) once all alignment functions have -completed. Each sub-job's state is reported in its own tab: -

-

Multiple Multiple Sequence Alignment -sub jobs running at once -
-

-
-

+

+ Multiple Alignments of Sequences with hidden + columns
Multiple alignment services are 'column + separable' analysis operations. If the input contains hidden columns then each visible segment of the input sequence + set will be submitted for alignment separately, and the results + concatenated (with the hidden regions preserved) once all alignment + functions have completed. Each sub-job's state is reported in its + own tab: +

+

+ Multiple Multiple Sequence Alignment sub jobs + running at once +
+

+
+ +
+