GenDBWiki/WebDocumentation/DialogWindows/SearchDialog: Difference between revisions
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The default mode hides you most information and is meant to be easy to work with. You can only search for CDS regions and use only attributes | The default mode hides you most information and is meant to be easy to work with. You can only search for CDS regions and use only attributes | ||
which are defined for CDS regions. | which are defined for CDS regions. | ||
If you want to search for 'Annotaion Description' or/and 'Annotation Comment' only in the last annotations, you have to choose the 'only lastest Annotation' option for this search fields (available since GenDB version 2.4). | If you want to search for '''"Annotaion Description"''' or/and '''"Annotation Comment"''' only in the last annotations, you have to choose the '''"only lastest Annotation"''' option for this search fields (available since GenDB version 2.4). | ||
One of the new search fields (that are available since GenDB version 2.4) is the 'Contig(s)' field. By default, the search will be done in all contigs, but you can specify your search for only a part of them by selecting one or more of the contigs of the contigs list. | One of the new search fields (that are available since GenDB version 2.4) is the '''"Contig(s)"''' field. By default, the search will be done in all contigs, but you can specify your search for only a part of them by selecting one or more of the contigs of the contigs list. | ||
[[Image:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search_a2.png]] | [[Image:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search_a2.png]] | ||
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== Advanced search mode == | == Advanced search mode == | ||
The more advanced view opens when you click on the button ''' | The more advanced view opens when you click on the button '''"More options >>"'''. | ||
Now you can select the type of region you are looking for. Attributes that are not defined for the region you chose are shown in grey and cannot be searched. The other attributes can be searched in an arbitrary combination. | Now you can select the type of region you are looking for. Attributes that are not defined for the region you chose are shown in grey and cannot be searched. The other attributes can be searched in an arbitrary combination. | ||
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== Search results == | == Search results == | ||
In | In this example, we searched for all CDS with the ''gene name'' "par" followed by nor or some arbitrary character(s) ".*". | ||
Below the search options our results are shown. There are 4 regions which meet our criteria. These regions can either be annotated or marked in the [[GenDBWiki/WebDocumentation/MainViews/ContigView|ContigView]]. | Below the search options our results are shown. There are 4 regions which meet our criteria. These regions can either be annotated or marked in the [[GenDBWiki/WebDocumentation/MainViews/ContigView|ContigView]]. | ||
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[[Image:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search_c2.png]] | [[Image:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search_c2.png]] | ||
The | The normal mode shows only a few information of the search hits. By clicking on the button '''"Show details"''', more information will be shown for this hit. | ||
[[Image:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search_d.png]] | |||
If you click on the name of a region the [[GenDBWiki/WebDocumentation/MainViews/ContigView|ContigView]] will jump to that region and select it. | If you click on the name of a region the [[GenDBWiki/WebDocumentation/MainViews/ContigView|ContigView]] will jump to that region and select it. | ||
== What can be done with the results == | == What can be done with the results == | ||
At the end of the result list, you could find 2 buttons ('Annotate selection' and 'Highlight selection') for normal users and 2 more buttons ('Show sync annotation fields' and 'Show exporting fields') if you are allowed to export and change the annotations. | At the end of the result list, you could find 2 buttons ('''"Annotate selection"''' and '''"Highlight selection"''') for normal users and 2 more buttons ('''"Show sync annotation fields"''' and '''"Show exporting fields"''') if you are allowed to export and change the annotations. | ||
If '''Annotate selection''' is pressed, the [[GenDBWiki/WebDocumentation/DialogWindows/MultiAnnotator|MultiAnnotator]] will pop up to annotate all the regions at once. If the '''Highlight selection''' button is pressed all checked regions will be highlighted blue in the [[GenDBWiki/WebDocumentation/MainViews/ContigView|ContigView]] and its QuickNavigationBar. | If '''"Annotate selection"''' is pressed, the [[GenDBWiki/WebDocumentation/DialogWindows/MultiAnnotator|MultiAnnotator]] will pop up to annotate all the regions at once. If the '''"Highlight selection"''' button is pressed all checked regions will be highlighted blue in the [[GenDBWiki/WebDocumentation/MainViews/ContigView|ContigView]] and its QuickNavigationBar. | ||
The 'annotation synchronization' and the 'result list exporter' are available since GenDB version 2.4. | The ''annotation synchronization'' and the ''result list exporter'' are available since GenDB version 2.4. | ||
The fields for the 'annotation synchronization' are shown by clicking on the button '''Show sync annotation fields'''. You can hide the fields by clicking on the same | The fields for the ''annotation synchronization'' are shown by clicking on the button '''"Show sync annotation fields"'''. You can hide the fields by clicking again on the same button. | ||
[[Image:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search_e.png]] | [[Image:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search_e.png]] | ||
The 'result list exporter' fields will be shown after clicking the button '''Show exporting fields'''. | The ''result list exporter'' fields will be shown after clicking the button '''"Show exporting fields"'''. | ||
[[Image:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search_f.png]] | [[Image:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search_f.png]] | ||
You can choose the values, which should be exported, by clicking in the associated checkboxes. | |||
Beneath this, there is a checkbox for adding a ''comment line'' to the export-file, which contains the name of the checked values. | |||
You also can choose the type of separation between '''"tabulator"''' (recommended) and '''"comma"'''. | |||
By clicking the '''"Export values"''' button, the export-file will be generated and a save dialog will be opened. | |||
Latest revision as of 07:15, 26 October 2011
Search Dialog
This dialog lets you search for any regions that are in your project.
Default search mode
The default mode hides you most information and is meant to be easy to work with. You can only search for CDS regions and use only attributes which are defined for CDS regions. If you want to search for "Annotaion Description" or/and "Annotation Comment" only in the last annotations, you have to choose the "only lastest Annotation" option for this search fields (available since GenDB version 2.4). One of the new search fields (that are available since GenDB version 2.4) is the "Contig(s)" field. By default, the search will be done in all contigs, but you can specify your search for only a part of them by selecting one or more of the contigs of the contigs list.
File:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search a2.png
Advanced search mode
The more advanced view opens when you click on the button "More options >>". Now you can select the type of region you are looking for. Attributes that are not defined for the region you chose are shown in grey and cannot be searched. The other attributes can be searched in an arbitrary combination.
File:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search b2.png
Search results
In this example, we searched for all CDS with the gene name "par" followed by nor or some arbitrary character(s) ".*".
Below the search options our results are shown. There are 4 regions which meet our criteria. These regions can either be annotated or marked in the ContigView.
File:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search c2.png
The normal mode shows only a few information of the search hits. By clicking on the button "Show details", more information will be shown for this hit.
File:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search d.png
If you click on the name of a region the ContigView will jump to that region and select it.
What can be done with the results
At the end of the result list, you could find 2 buttons ("Annotate selection" and "Highlight selection") for normal users and 2 more buttons ("Show sync annotation fields" and "Show exporting fields") if you are allowed to export and change the annotations.
If "Annotate selection" is pressed, the MultiAnnotator will pop up to annotate all the regions at once. If the "Highlight selection" button is pressed all checked regions will be highlighted blue in the ContigView and its QuickNavigationBar.
The annotation synchronization and the result list exporter are available since GenDB version 2.4.
The fields for the annotation synchronization are shown by clicking on the button "Show sync annotation fields". You can hide the fields by clicking again on the same button.
File:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search e.png
The result list exporter fields will be shown after clicking the button "Show exporting fields".
File:GenDBWiki$$WebDocumentation$$DialogWindows$$SearchDialog$search f.png
You can choose the values, which should be exported, by clicking in the associated checkboxes. Beneath this, there is a checkbox for adding a comment line to the export-file, which contains the name of the checked values. You also can choose the type of separation between "tabulator" (recommended) and "comma".
By clicking the "Export values" button, the export-file will be generated and a save dialog will be opened.