From: jprocter Date: Thu, 6 Sep 2012 17:17:14 +0000 (+0100) Subject: typo X-Git-Tag: Jalview_2_9~319 X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=86040a91ca17b1dae64c0d7c542a13545c8466c0;p=jalview.git typo --- diff --git a/help/html/calculations/quality.html b/help/html/calculations/quality.html index e83a124..fc75e4f 100755 --- a/help/html/calculations/quality.html +++ b/help/html/calculations/quality.html @@ -27,7 +27,7 @@ measure of the likelihood of observing the mutations (if any) in a particular column of the alignment.

More precisely, the quality score is inversely proportional to the -average cost of all pairs of mutations oberved in a particular column +average cost of all pairs of mutations observed in a particular column of the alignment - a high alignment quality score for a column would suggest that there are no mutations, or most mutations observed are favourable. @@ -36,8 +36,8 @@ favourable.

The Algorithm
The quality score is calculated for each column in an alignment by summing, for all mutations, the ratio of the two BLOSUM 62 scores for -a mutation pair and each residue's conservered BLOSUM62 score (which -is higher). This valueis normalised for each column, and then plotted +a mutation pair and each residue's conserved BLOSUM62 score (which +is higher). This value is normalised for each column, and then plotted on a scale from 0 to 1.