X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=examples%2FappletParameters.html;h=04cc235164ee30368f32b1253282173f3a7016d5;hb=refs%2Fheads%2Fbug%2FJAL-247autoIdWidthSeqMarker;hp=cc95ecb808876d00c2839cd9a48df2dd179872f6;hpb=37de9310bec3501cbc6381e0c3dcb282fcaad812;p=jalview.git
diff --git a/examples/appletParameters.html b/examples/appletParameters.html
index cc95ecb..04cc235 100644
--- a/examples/appletParameters.html
+++ b/examples/appletParameters.html
@@ -91,8 +91,9 @@ the applet can be interacted with via its
jnetfile |
fileName |
Secondary structure predictions from a Jnet Concise
- file will be added to the first sequence in the alignment. |
+ href="http://www.compbio.dundee.ac.uk/~www-jpred/">JPred Concise
+ file will be added to the first sequence in the alignment.
+ jpredfile can be used interchangeably with this parameter.
PDBfile(x) |
@@ -114,7 +115,7 @@ the applet can be interacted with via its
defaultColour |
One of:
Clustal, Blosum62, % Identity, Hydrophobic, Zappo, Taylor, Helix
- Propensity, Strand Propensity, Turn Propensity, Buried Index, Nucleotide, T-Coffee Scores, RNA Helices |
+ Propensity, Strand Propensity, Turn Propensity, Buried Index, Nucleotide, Purine/Pyrimidine, T-Coffee Scores, RNA Helices
Default is no colour. |
@@ -158,6 +159,11 @@ the applet can be interacted with via its
Default is true. |
+ showOccupancy |
+ true or false |
+ Default is true. |
+
+
sortBy |
Id , Pairwise Identity, or Length |
Sorts the alignment on startup |