X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=site-resources%2Fjalview_embedded_example1.html;fp=site-resources%2Fjalview_embedded_example1.html;h=0e0c418dfb483343c7071b928e395577fcf195b6;hb=ce270fef5a3e00b57f0b2077800796c3654ac68f;hp=0000000000000000000000000000000000000000;hpb=da98b580a62f583db2e12c8910e6d68862c22623;p=jalview.git diff --git a/site-resources/jalview_embedded_example1.html b/site-resources/jalview_embedded_example1.html new file mode 100644 index 0000000..0e0c418 --- /dev/null +++ b/site-resources/jalview_embedded_example1.html @@ -0,0 +1,137 @@ + + + +Embedded JalviewJS Example 1 + + + + + + + + + + + + + + + + + + + + + + + +
Demonstration of embedded JalviewJS components
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+This simple page illustrates how one can embed the JalviewJS desktop into a web page. +The basic idea is that we have something interesting to say — some sort of scientific context — something we want to get +across to our visitors with more than just text and images. The idea is to have a dynamic page that will involve user interaction. +

+We start with a Jalview desktop. You can't see it, because I have placed it in a div tag with style width:0px;height:0px just after the period that ends this sentence. +
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+The idea is NOT to teach visitors how to use Jalview. The idea is to seamlessly integrate components of Jalview that can be used to enrich a discussion. +Like JSmol in Proteopedia. +For example, in the space to the right, after a few seconds, you will see an alignment frame. This alignment is for 15 genes that code for one of the domains in the ferredoxin family (NIR_SIR_ferr (PF03460)). +

+What you see initially is just the first few residues. Doesn't look like much of an alignment, does it? But scroll to the right. +See the big block of red color? That's the Ferredoxin folddomain. + +
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+The alignment frame will appear here momentarily. When it does, you can go ahead and manipulate the alignment with your mouse. +
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+Select a few alignments by left-dragging across a few rows of the alignment to make a selection box. +Then click one of the buttons below to see more information about your selected subset of the alignment. +
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+jalview-tree-div +
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+jalview-pca-div +
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+jalview-strucddtureviewer-div +
+		 +One more thing. Let's take a look at the 3D structure of one these proteins. Ferredoxins are important, because they have +iron-sulfur clusters that can accept and deliver electrons in metabolic processes. Let's see if we can find it. +
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+This is System.out. clear it
Add ?j2snocore to URL to see full class list; ?j2sdebug to use uncompressed j2s/core files
get _j2sClassList.txt +
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