charite.christo.strap
Class StrapKeyStroke

java.lang.Object
  charite.christo.strap.StrapKeyStroke

public class StrapKeyStroke
extends java.lang.Object

HELP The keyboard is used to move the alignment cursor and to introduced/removed alignment gaps.

Cursor Movements

Arrow keys	Cursor navigation
CTRL arrow keys	move to beginning or end
ALT + arrow keys	move to next gap
HOME	First row
END	Last row
SHIFT HOME	First column
SHIFT END	Last column

Movement of the view-port

PAGE-UP / PAGE-DOWN	Scroll up and down
SHIFT PAGE-UP	Scroll left

Deleting gaps

DELETE	Delete gap right from or under cursor
BACKSPACE	DELETE gap left from cursor
CTRL DELETE	Delete next gap right from the cursor
CTRL BACKSPACE	Delete next gap left from cursor
CTRL SHIFT DELETE	Delete entire white space under cursor
CTRL SHIFT BACKSPACE	Delete entire white space left from cursor

Inserting gaps

SPACE	Insert gap under cursor
INSERT	Insert gaps until next residue in above row is reached. Effectively it copies the gaps from the line above.
CTRL INSERT	Remove gaps until previous residue in above row is reached
SHIFT INSERT	Insert gaps until next residue in below row is reached

Repetition number. Performing an operation n times

4 2 SPACE	Insert 42 gaps
4 2 DELETE	Delete 42 gaps

Moving a sequence blocks: A group of consecutive residues that are not interrupted by gaps is moved left or right.

>	Move continuous group of residues right
<	Move continuous group of residues left

Window

CTRL N	New alignment panel
CTRL W	Close alignment panel

Miscellaneous

CTRL K	Close protein
CTRL *	Display letters in better quality
U	Upper Case
L	Lower Case

Font Size

CTRL "+"	Zoom in
CTRL "-"	Zoom out

Goto position

4 2 i	Move cursor to residue index 42
4 r	Move cursor to 4th row
42 c	Move cursor to column 42
42 n	Move cursor pdb-number 42

Save / restore position

S	Save current cursor position
s	Revert cursor position previously saved
4 S	Save current cursor position to "4"
4 s	Restore cursor position previously saved in "4"

The mouse actions follow general conventions:

1. Sequence alignment
   • left-click sets the cursor.
   • middle-click sets the focus without changing the cursor.
   • right-click opens a context menu either for the alignment pane or for a residue selection.
   • Dragging creates a mouse selection.
   • Dragging over more than one sequence creates a rectangular region. Residue selections and annotations within the rectangle are selected. SHIFT for union-set and CTRL for cut-set similar to the program gimp or the MS-Window desktop.
   • ALT + Dragging scrolls two-dimensionally. Under Unix/Linux also hold SHIFT
2. Row-header
   • Dragging up/down changes the order of proteins.
   • CTRL left-click selects or deselects the protein.
   • right-click opens a context menu for the protein.
3. Scroll-bar or alignment pane
   • Wheel scrolls.
   • SHIFT + Wheel scrolls vertically
   • CTRL + Wheel zooms.

Sequence groups

G x	Define all currently selected proteins as group "x".
g x	Load and select proteins of sequence group "x" if not already loaded. Select these proteins.
h x	Hide all proteins of sequence group "x".
u x	Unselect all proteins of sequence group "x".

Sequence Groups:
Sequences can be grouped. Groups are designated by a digit or letter. The names of all proteins of a group are listed in a file in ./annotations/sequenceGroups/. SEE_CLASS:StrapView SEE_CLASS:Gaps2Columns

Constructor Summary

StrapKeyStroke(StrapView v)

Method Summary

void	pe(java.awt.AWTEvent ev)

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

StrapKeyStroke

public StrapKeyStroke(StrapView v)

Method Detail

pe

public void pe(java.awt.AWTEvent ev)