X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Ffeatures%2FbioJsonFormat.html;h=59b49365cfa4fb2d17a9843e53d7c58a70adcc7f;hb=ab222dff0212dbe29d7c958a365963c41dc16d38;hp=09e419717f49b6855ae7031c9c5c42659b851cf6;hpb=82bb69383ab22735cbd3440c670ae0b290fe6afd;p=jalview.git diff --git a/help/html/features/bioJsonFormat.html b/help/html/features/bioJsonFormat.html index 09e4197..59b4936 100644 --- a/help/html/features/bioJsonFormat.html +++ b/help/html/features/bioJsonFormat.html @@ -20,7 +20,7 @@ * The Jalview Authors are detailed in the 'AUTHORS' file. --> -BioJSON in Jalviwe +BioJSON in Jalview

@@ -29,10 +29,12 @@

BioJSON is a JavaScript Object Notation (JSON) specification for the representation and exchange of multiple sequence alignment data.

-

Jalview 2.9 includes support for reading and writing BioJSON - v1.0 data directly, or embedded in HTML documents. It can also - generate HTML pages which employ the BioJS MSA viewer for - interactive display of BioJSON data.

+

+ Jalview 2.9 includes support for reading and writing BioJSON v1.0 + data directly, or embedded in HTML documents. It can also generate + HTML pages which employ the BioJS MSA + viewer for interactive display of BioJSON data. +

Finding out more about BioJSON

@@ -41,10 +43,25 @@ href="http://jalview.github.io/biojson/">http://jalview.github.io/biojson/.

+ Import of BioJSON data from HTML pages +

+

When importing embedded data in an HTML document, Jalview + searches for a hidden (usually) input or div element named + "seqData":

+ 
+    <div name="seqData" id="seqData" style="display: none;">#valid BioJSON data#</div>
+
+ OR + 
+    <input type="hidden" id="seqData" name="seqData" value='#valid BioJSON data#'/>
+
+

Jalview can also import BioJSON data directly.

+ +

Jalview's Support for BioJSON v1.0

-

It is currently possible to export an alignment view along with - the following additional data:

+

BioJSON exports of an alignment view include the following + additional data:

-

- Jalview data not supported in BioJSON v1.0 -

-

The following data are not currently preserved on export:

+

The following data are NOT currently preserved on export: