X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=inline;f=help%2Fhtml%2Ffeatures%2FsplitView.html;fp=help%2Fhtml%2Ffeatures%2FsplitView.html;h=59894f67f16e4e0a28492b9f3270431985a8818b;hb=8392c56e80d73084bd8eac9276979bdf28f462a2;hp=80e27b07b18a680e0d2598805075412b3a3ab52d;hpb=3e088b1ff6affcbbc271bd8ba70252bbf2cac9d1;p=jalview.git diff --git a/help/html/features/splitView.html b/help/html/features/splitView.html index 80e27b0..59894f6 100644 --- a/help/html/features/splitView.html +++ b/help/html/features/splitView.html @@ -62,37 +62,28 @@ calculated protein product in a Split Frame view.
On selecting protein cross-references (for a cDNA alignment), or DNA xrefs (for peptide), a Split Frame view is opened showing cDNA and peptide.Realign a Split View
-If you invoke a web service to realign either half of a Split Frame, then the resulting realignment is displayed in a new -Split Frame.
-Applet
-To see a split frame view in the Jalview applet, provide these applet parameters: -
Parameter | Value | Description | -
---|---|---|
file | path to an alignment file | a cDNA (or protein) alignment | -
file | path to an alignment file | a protein (or cDNA) alignment | -
enableSplitFrame | true | to enable the Split Frame feature | -
+
If you invoke a web service to realign either half of a Split + Frame, then the resulting realignment is displayed in a new Split + Frame. +
+Reconstructed Alignments + Reconstructed alignments are typically not + the same as the alignment produced by aligning the complement + sequence set directly with the external service. However, in the + case of protein alignments, a reconstructed cDNA alignment is often + more reliable than one calculated without coding information. + Reconstructed cDNA alignments are also more informative than the + original protein alignment when calculating phylogenetic trees or + performing other kinds of molecular evolution analysis. +
+Split Frame Views were introduced in Jalview 2.9
-- Example files for cDNA/Protein: estrogenReceptorProtein.fa - and estrogenReceptorCdna.fa - taken from xxx. -