#-------------------------------------------------------------------------------
# Jalview - A Sequence Alignment Editor and Viewer (Version 2.5.1)
# Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
#
# This file is part of Jalview.
#
# Jalview is free software: you can redistribute it and/or
# modify it under the terms of the GNU General Public License
# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
#
# Jalview is distributed in the hope that it will be useful, but
# WITHOUT ANY WARRANTY; without even the implied warranty
# of MERCHANTABILITY or FITNESS FOR A PARTICULAR
# PURPOSE. See the GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License along with Jalview. If not, see .
#-------------------------------------------------------------------------------
Removing Redundancy
Removing redundancy
Selecting the option in the Alignment window's Edit
menu or pressing 'CONTROL+D' brings up a dialog box
asking you to select a threshold. If the percentage identity between the
aligned positions of any two sequences in the visible alignment exceeds
this value, the shorter sequence is discarded.
Note: The redundancy
calculation is done when the dialog box is opened. For large numbers
of sequences this can take a long time as all pairs have to be compared.