X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FcolourSchemes%2Fconservation.html;h=b666c564ebab601356552428992313520012df8d;hb=db93a1adcbe0a4eaaf06e0a70ade0d6c5c1961c3;hp=c58d5b7c0c791e3628164f57b59bd8f649097ef1;hpb=a90e2fe3cc3b779521a81cf8de410936f3a777c1;p=jalview.git diff --git a/help/html/colourSchemes/conservation.html b/help/html/colourSchemes/conservation.html index c58d5b7..b666c56 100755 --- a/help/html/colourSchemes/conservation.html +++ b/help/html/colourSchemes/conservation.html @@ -33,9 +33,9 @@ alignment analysis (Livingstone C.D. and Barton G.J. (1993), Protein Sequence Alignments: A Strategy for the Hierarchical Analysis of Residue Conservation.CABIOS Vol. 9 No. 6 (745-756)). See the conservation calculation help page for a more thorough - explanation of the calculation. + href="../calculations/conservation.html">conservation + calculation help page for a more thorough explanation of the + calculation.

For an already coloured alignment, the conservation index at each alignment position is used to modify the shading intensity of @@ -46,11 +46,10 @@

Conservation can be calculated over all sequences in an alignment, or just within specific groups (such as those defined by phylogenetic tree partitioning). The option 'apply to all groups' - controls whether the contrast slider value will be applied to the - indices for the currently selected group, or all groups defined over - the alignment. + href="../calculations/tree.html">phylogenetic tree + partitioning). The option 'apply to all groups' controls whether + the contrast slider value will be applied to the indices for the + currently selected group, or all groups defined over the alignment.