From: gmungoc Date: Thu, 18 Sep 2014 12:58:40 +0000 (+0100) Subject: JAL-1360 consistent (bold) help page headings X-Git-Tag: Release_2_8_2b1^2~53^2~1 X-Git-Url: http://source.jalview.org/gitweb/?p=jalview.git;a=commitdiff_plain;h=1beba71ad7fd8c258c210cbe537d51bc7d831177 JAL-1360 consistent (bold) help page headings --- diff --git a/help/html/colourSchemes/abovePID.html b/help/html/colourSchemes/abovePID.html index e609972..74dd665 100755 --- a/help/html/colourSchemes/abovePID.html +++ b/help/html/colourSchemes/abovePID.html @@ -30,7 +30,7 @@ td { -

Colouring above a percentage identity threshold

+

Colouring above a percentage identity threshold

Selecting this option causes the colour scheme to be applied to only those residues that occur in that column more than a certain percentage of the time. For instance selecting the threshold to be 100 will only colour those columns diff --git a/help/html/colourSchemes/blosum.html b/help/html/colourSchemes/blosum.html index 6749d4e..338ca55 100755 --- a/help/html/colourSchemes/blosum.html +++ b/help/html/colourSchemes/blosum.html @@ -31,7 +31,7 @@ td { -

Blosum62

+

Blosum62

Gaps are coloured white. If a residue matches the consensus sequence residue at that position it is coloured dark blue. If it does not match the consensus residue but the 2 residues have a positive Blosum62 score, it is coloured light diff --git a/help/html/colourSchemes/buried.html b/help/html/colourSchemes/buried.html index 1373404..5943d36 100755 --- a/help/html/colourSchemes/buried.html +++ b/help/html/colourSchemes/buried.html @@ -30,7 +30,7 @@ td { -

Buried index

+

Buried index

diff --git a/help/html/colourSchemes/clustal.html b/help/html/colourSchemes/clustal.html index b95a348..33455dc 100755 --- a/help/html/colourSchemes/clustal.html +++ b/help/html/colourSchemes/clustal.html @@ -30,7 +30,7 @@ td { -

Clustal X Colour Scheme

+

Clustal X Colour Scheme

This is an emulation of the default colourscheme used for alignments in Clustal X, a graphical interface for the ClustalW multiple sequence alignment program. Each residue in the alignment is assigned a colour if the diff --git a/help/html/colourSchemes/conservation.html b/help/html/colourSchemes/conservation.html index 8866435..5ceba85 100755 --- a/help/html/colourSchemes/conservation.html +++ b/help/html/colourSchemes/conservation.html @@ -21,7 +21,7 @@ --> Colouring by Conservation -

Colouring by Conservation

+

Colouring by Conservation

This is an approach to alignment colouring which highlights regions of an alignment where physicochemical properties are conserved. It is based on the one used in diff --git a/help/html/colourSchemes/helix.html b/help/html/colourSchemes/helix.html index e4142c1..8c698c0 100755 --- a/help/html/colourSchemes/helix.html +++ b/help/html/colourSchemes/helix.html @@ -30,7 +30,7 @@ td { -

Helix Propensity

+

Helix Propensity

diff --git a/help/html/colourSchemes/hydrophobic.html b/help/html/colourSchemes/hydrophobic.html index 288a2d1..6b4cf2d 100755 --- a/help/html/colourSchemes/hydrophobic.html +++ b/help/html/colourSchemes/hydrophobic.html @@ -30,7 +30,7 @@ td { -

Hydrophobicity

+

Hydrophobicity

According to the hydrophobicity table of Kyte, J., and Doolittle, R.F., J. Mol. Biol. 1157, 105-132, 1982. The most hydrophobic residues according to this table are coloured red and the most hydrophilic ones are coloured blue.

diff --git a/help/html/colourSchemes/nucleotide.html b/help/html/colourSchemes/nucleotide.html index 601230b..065c818 100755 --- a/help/html/colourSchemes/nucleotide.html +++ b/help/html/colourSchemes/nucleotide.html @@ -30,7 +30,7 @@ td { -

Nucleotide Colours

+

Nucleotide Colours

diff --git a/help/html/colourSchemes/pid.html b/help/html/colourSchemes/pid.html index f90fde9..47b992a 100755 --- a/help/html/colourSchemes/pid.html +++ b/help/html/colourSchemes/pid.html @@ -30,7 +30,7 @@ td { -

PID Colours
+

PID Colours

The PID option colours the residues (boxes and/or text) according to the percentage of the residues in each column that agree with the consensus sequence. Only diff --git a/help/html/colourSchemes/purinepyrimidine.html b/help/html/colourSchemes/purinepyrimidine.html index 6655392..4337d48 100644 --- a/help/html/colourSchemes/purinepyrimidine.html +++ b/help/html/colourSchemes/purinepyrimidine.html @@ -30,7 +30,7 @@ td { -

Purine/Pyrimidine Colours

+

Purine/Pyrimidine Colours

diff --git a/help/html/colourSchemes/strand.html b/help/html/colourSchemes/strand.html index a653c8e..fe7c469 100755 --- a/help/html/colourSchemes/strand.html +++ b/help/html/colourSchemes/strand.html @@ -30,7 +30,7 @@ td { -

Strand propensity

+

Strand propensity

diff --git a/help/html/colourSchemes/taylor.html b/help/html/colourSchemes/taylor.html index 268915d..a5c4f05 100755 --- a/help/html/colourSchemes/taylor.html +++ b/help/html/colourSchemes/taylor.html @@ -30,7 +30,7 @@ td { -

Taylor

+

Taylor

These colours were invented by Willie Taylor and an entertaining description of their birth can be found in Protein Engineering, Vol 10 , 743-746 (1997)

diff --git a/help/html/colourSchemes/turn.html b/help/html/colourSchemes/turn.html index ec65d6f..87dbe37 100755 --- a/help/html/colourSchemes/turn.html +++ b/help/html/colourSchemes/turn.html @@ -30,7 +30,7 @@ td { -

Turn propensity

+

Turn propensity

diff --git a/help/html/colourSchemes/zappo.html b/help/html/colourSchemes/zappo.html index 01d2b37..db025c0 100755 --- a/help/html/colourSchemes/zappo.html +++ b/help/html/colourSchemes/zappo.html @@ -30,7 +30,7 @@ td { -

Zappo Colours
+

Zappo Colours

The residues are coloured according to their physicochemical properties as follows: