X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Fna%2Findex.html;h=11549fd61d157c2cefeacbaca9fe420666bbb392;hb=8dbb48ad299320b71e3d59eb79a8634f97aff6bb;hp=f3c4a5686798477419245cc54548b8494db667e7;hpb=e5cbd35e13f46ae1d59a08b0af1086677418141d;p=jalview.git diff --git a/help/html/na/index.html b/help/html/na/index.html index f3c4a56..11549fd 100644 --- a/help/html/na/index.html +++ b/help/html/na/index.html @@ -1,7 +1,7 @@ +
  • RNAML Jalview can import RNAML files containing sequences and extended secondary structure annotation derived from RNA 3D structure

    • RNA Secondary Structure Visualization and Analysis
    @@ -85,6 +85,10 @@ td { Visualization in VARNA - allows linked viewing of the consensus or an individual sequence's structure +

    Pseudo-knots
    + Jalview 2.8.2 introduced limited support for working with structures including pseudoknots. Where possible, extended WUSS symbols (e.g. different types of parentheses, or upper and lower case letters) are preserved when parsing RNA structure annotation and will be shaded differently when displayed in the structure.
    + Extended WUSS annotation is also employed to distinguish different base pair interactions obtained from RNAML files.

    +

    Limitations when working with RNA in Jalview
    Currently, Jalview is not able to export RNA secondary structure annotation in any format other than Jalview annotation