X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Fcalculations%2Fredundancy.html;fp=help%2Fhtml%2Fcalculations%2Fredundancy.html;h=e97e3b0aca6fc962471f730bc664fa1b5ef17789;hb=e143a4bd499db90ed40cec0ac3626efb5937983b;hp=1f3d4641d46c99e879afbce028f4e3c536af88bf;hpb=636c4829ba51f11e71e56c1470fb3ad73eeb81c3;p=jalview.git diff --git a/help/html/calculations/redundancy.html b/help/html/calculations/redundancy.html index 1f3d464..e97e3b0 100755 --- a/help/html/calculations/redundancy.html +++ b/help/html/calculations/redundancy.html @@ -3,9 +3,13 @@

Removing redundancy

Selecting this option brings up a window asking you to select a threshold. - If the percentage identity between two sequences exceeds this value one of the + If the percentage identity between two sequences (based on the + current alignment) exceeds this value one of the sequences (the shorter) is discarded. The redundancy calculation is done when - the Apply button is pressed. For large numbers of sequences this can take a - long time as all pairs have to be compared.

+ the Apply button is pressed, and the undo button recovers the + original set or any previously calculated subset. The detection of + redundant sequences involves a pairwise comparison of all the + sequences, so you may have to wait a few moments when applying this to + large sequence sets.