X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=help%2Fhtml%2Fcalculations%2Fconsensus.html;h=0476f05ff35122d923e027c6765bb1ae46c8ac65;hb=17e77c3f2949a0729322b4a8d907f3f34b6a9914;hp=71a1719f452f42f634fb138096c3b96d78a7ef9e;hpb=85fb1c79fd82d7eada801624f745635632be8362;p=jalview.git diff --git a/help/html/calculations/consensus.html b/help/html/calculations/consensus.html index 71a1719..0476f05 100644 --- a/help/html/calculations/consensus.html +++ b/help/html/calculations/consensus.html @@ -1,18 +1,68 @@ -
Alignment Consensus Annotation
-The consensus displayed below the alignment is the percentage of the modal - residue per column. By default this calculation takes includes gaps in column. - You can choose to ignore gaps in the calculation by right clicking on the label - "Consensus" to the left of the consensus bar chart. -
If the modal value is shared by more than 1 residue, a "+" symbol - is used in the display for the simple reason that it is not possible to display - multiple characters in a single character space. -
Copying the consensus sequence
-Select the "Copy Consensus Sequence" entry from -the consensus annotation label to copy the alignment's consensus sequence to the -clipboard. -
++ Alignment Consensus Annotation +
+The consensus displayed below the alignment is the percentage + of the modal residue per column. By default this calculation + includes gaps in columns. You can choose to ignore gaps in the + calculation by right clicking on the label "Consensus" to + the left of the consensus bar chart. +
If the modal value is shared by more than 1 residue, a + "+" symbol is used in the display for the simple reason + that it is not possible to display multiple characters in a single + character space. +
+ Copying the consensus sequence +
++ Select the "Copy Consensus Sequence" + entry from the consensus annotation label to copy the alignment's + consensus sequence to the clipboard. +
+ Sequence logo +
+ By clicking on the label you can also activate the sequence logo. It + indicates the relative amount of residues per column which can be + estimated by its size in the logo. The tooltip of a column gives the + exact numbers for all occurring residues. ++ cDNA Consensus +
+ A + Split Frame View of cDNA and + Protein alignments will show the consensus for cDNA below the protein + alignment. +