From a5a0d509e08a0b6db7fd92a14006b7a3f2be22cf Mon Sep 17 00:00:00 2001 From: Jim Procter Date: Thu, 10 Sep 2015 03:10:58 +0100 Subject: [PATCH] JAL-1645 links from whats New page --- help/html/menus/popupMenu.html | 2 +- help/html/whatsNew.html | 19 ++++++++++--------- 2 files changed, 11 insertions(+), 10 deletions(-) diff --git a/help/html/menus/popupMenu.html b/help/html/menus/popupMenu.html index e7017f0..e9f8e8f 100755 --- a/help/html/menus/popupMenu.html +++ b/help/html/menus/popupMenu.html @@ -173,7 +173,7 @@ href="../features/varna.html">VARNA. -
  • Hide Insertions
    +
  • Hide Insertions
    Hides columns containing gaps in the current sequence or selected region, and reveals columns not including gaps.
  • Hide Sequences
    Hides the diff --git a/help/html/whatsNew.html b/help/html/whatsNew.html index b115385..693b0f0 100755 --- a/help/html/whatsNew.html +++ b/help/html/whatsNew.html @@ -45,8 +45,8 @@ reconstructed from protein alignments calculated by Jalview's web services, and update in response to edits in the amino acid view.
    To start experimenting with cDNA/Protein analysis, jut drop a file - containing cDNA sequences which code for, and have IDs matching - proteins in an existing alignment, and Jalview will do the rest.
    • + containing cDNA sequences which code for proteins in an existing + alignment, and Jalview will do the rest.
  • Enhanced Integration of UCSF Chimera
    Jalview 2.9 provides full support for the use of Chimera to view 3D structures linked to alignment views in the Jalview Desktop. We've @@ -58,7 +58,7 @@ much more responsive, and selected regions in Chimera are now shown as highlighted regions in the Jalview desktop.
  • Interactive querying of the PDBe
    Jalview - users can now browse and retrieve 3D structure data from the PDB + users can now     browse and retrieve 3D structure data from the PDB via the PDBe Search API (Gutmanas et al 2014). Developed in collaboration with the PDBe group at @@ -74,12 +74,13 @@ including the loss of pseudoknots when RNA secondary structure is shown VARNA.
  • Protein Secondary Structure predictions - with JPred4
    Jalview includes a number of new features for working - with secondary structure predictions from the JPred4 server. These - include the ability to automatically hide insertions and highlight - mutations in an alignment with respect to a reference sequence. - Jalview 2.9's new scrollable SVG HTML export was also - developed specifically for the JPred4 server.
    • + with JPred4
    Jalview includes a number of new features for + working with secondary structure predictions from the JPred4 + server. These include new popup menu actions to automatically hide insertions and highlight + mutations in an alignment with respect to a Reference + Sequence. Jalview 2.9's new scrollable + SVG HTML export was also developed specifically for the JPred4 + server. -- 1.7.10.2