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Annotation Panel Menus
-Annotation Panel Menus
-
- - Annotation Label Popup Menu
- This menu is opened by clicking anywhere on the annotation row labels
- area (below the sequence ID area).
-
- - Add New Row
- Adds a new, named annotation row (a dialog box will pop up for you
- to enter the label for the new row).
- - Edit Label/Description
- This opens a dialog where you can change the name (displayed label), or the description
- (as shown on the label tooltip) of the clicked annotation.
- - Hide This Row
- Hides the annotation row whose label was clicked in order to bring up
- the menu.
- - Hide All <label>
- Hides all annotation rows whose label matches the one clicked.
- (This option is only shown for annotations that relate to individual sequences,
- not for whole alignment annotations. Since Jalview 2.8.2.)
- - Delete Row
- Deletes the annotation row whose label was clicked in order to bring
- up the menu.
- - Show All Hidden Rows
- Shows all hidden annotation rows.
- - Export Annotation (Application only)
- Annotations can be saved to file or output to a text window in either the
- Jalview annotations format or as a spreadsheet style set of comma separated values (CSV).
- - Show Values in Text Box (applet only)
- Opens a text box with a list of comma-separated values corresponding
- to the annotation (numerical or otherwise) at each position in the row.
- This is useful to export alignment quality measurements for further analysis.
-
-
- The following additional entries are available when the popup menu is opened on a consensus sequence annotation row:
-
-
-
- Copy Consensus Sequence
- Copies the consensus sequence to the clipboard in Fasta format, to allow
- the consensus sequence to be added to an alignment. Note the copied sequence
- is not accessible to other programs if Jalview is running as an applet
- in a web page.
-
-
- Annotation Popup Menu
- This menu is opened when right-clicking on the selected positions
- of an annotation.
-
- - Helix
- Mark selected positions with a helix glyph (a red oval), and optional
- text label (see below). Consecutive ovals will be rendered as an unbroken
- red line.
- - Sheet
- Mark selected positions with a sheet glyph (a green arrow oriented
- from left to right), and optional text label (see below). Consecutive
- arrows will be joined together to form a single green arrow.
- - Label
- Sets the text label at the selected positions. If more that one consecutive
- position is marked with the same label, only the first position's label
- will be rendered.
- - Colour
- Changes the colour of the annotation text label.
- - Remove Annotation
- Blanks any annotation at the selected positions on the row. Note:
- This cannot be undone
-
-
-
+ Copy Consensus Sequence
+ Copies the consensus sequence to the clipboard in Fasta
+ format, to allow the consensus sequence to be added to an
+ alignment. Note the copied sequence is not accessible to other
+ programs if Jalview is running as an applet in a web page.
+
+ Annotation Popup Menu
+ This menu is opened when right-clicking on the selected
+ positions of an annotation.
+
+ - Helix
Mark selected
+ positions with a helix glyph (a red oval), and optional text
+ label (see below). Consecutive ovals will be rendered as an
+ unbroken red line.
+ - Sheet
Mark selected
+ positions with a sheet glyph (a green arrow oriented from
+ left to right), and optional text label (see below).
+ Consecutive arrows will be joined together to form a single
+ green arrow.
+ - Label
Sets the text
+ label at the selected positions. If more than one
+ consecutive position is marked with the same label, only the
+ first position's label will be rendered.
+ - Colour
Changes the
+ colour of the annotation text label.
+ - Remove Annotation
Blanks
+ any annotation at the selected positions on the row. Note: This
+ cannot be undone
+
+
+