X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=help%2Fhtml%2Fcalculations%2FcolumnFilterByAnnotation.html;h=1ece1cc2e6c8c4af4f2187228c0734689c7b8949;hb=601a323b3e90e2320c52d8b03aba55b1c535a9d0;hp=62bfcf10724e9a9db5c8adc15d59ec9dac615fb3;hpb=61d7d669232e22adc47cac9fe8dd9db291d382fe;p=jalview.git
diff --git a/help/html/calculations/columnFilterByAnnotation.html b/help/html/calculations/columnFilterByAnnotation.html
index 62bfcf1..1ece1cc 100644
--- a/help/html/calculations/columnFilterByAnnotation.html
+++ b/help/html/calculations/columnFilterByAnnotation.html
@@ -1,7 +1,7 @@
-Filter Columns by Annotation
+Select/Hide Columns by Annotation
- Filter Columns by Annotation
+ Select/Hide Columns by Annotation
- Jalview allows the columns of an alignment to be filtered using
- any annotation rows added to that alignment.
- From "Select" menu
- → "Select by Annotation..." to bring
- up the Select by Annotation window. The filter options vary depending
+ From Jalview 2.9 columns of an alignment can be filtered using
+ any annotation row added to that alignment.
+ To carry out this operation, navigate to "Select→Select/Hide Columns by Annotation..." to bring
+ up the 'Select/Hide by Annotation' window. The filter options vary depending
on the type of annotation selected. If an annotation that has a numeric
values is selected, the threshold filter option is activated as seen in the
- figure on the right below.
+ figure on the right below, otherwise the dialog will exclude the threshold filter option as seen in the figure on the left.
-
+
+
+
+  |
+  |
+
+
-
-
-
-
-
- - Select which annotation to base the filtering on using the
- top-most selection box.
+ - The target annotation row can be selected using the drop-down option menu in the top-most part of the window.
- Search Filter
- - When a text is entered in the textfield on the search
- filter section, the "Display Label" and "Description"
- checkboxes becomes selectable.
- - On selecting any of the checkboxes, a regular expresion
+
- When a text is entered in the text box within the Search
+ Filter section, the 'Display Label' and 'Description'
+ options becomes enabled for selection.
+ - On selecting any of the options, a regular expression
search (RegEx) is executed on the specified field of the current
annotation row selected, and the matching columns will be highlighted
in the alignment.
@@ -63,7 +60,7 @@
- Structure Filter
- Alignment columns can also be filtered by the type of
- secondary structure present in a choosen annotation row.
+ secondary structure present in a target annotation row.
- This can be achieved by ticking the type of structure you
wish to filter by under the structures filter section.
@@ -71,7 +68,7 @@
- This filter is only activated for annotation which contain
numeric values
- - Select whether to Filter the alignment above or below an
+
- Select whether to filter the alignment above or below an
adjustable threshold with the selection box within the threshold
filter section.
- Change the threshold value with the slider, or enter the
@@ -79,15 +76,15 @@
- Actions
- - The "Select" and "Hide" radio buttons
+
- The 'Select' and 'Hide' radio buttons
determines the action that will be carried out on the matching
columns in the alignment during the filtering process.
- - The default option is "Select" and this simply
+
- The default option is 'Select' and this simply
enables column selection on the matching alignment column.
- - While the "Hide" option enables the matching columns to
+
- While the 'Hide' option enables the matching columns to
be hidden automatically during the filtering process.
- - The "Ok" button applies the filter when clicked.
- - And finally, The "Cancel" button restores the alignment to its previous state before the filtering when clicked.
+
- The 'Ok' button applies the filter when clicked.
+ - And finally, the 'Cancel' button restores the alignment to its previous state before any filtering was applied.