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The Add Document Dialog allows the user to add a document to the comparison set. Documents can be imported either as plain text or as XML files. If plain text is selected, then the text is assumed by default to be UTF-8 encoded. Alternate text encodings can be selected in the encoding drop down box in the lower right of the dialog. If a Juxta XML document is selected, then the encoding is determined by reading specifications inside the XML file. The bibliographic data for Juxta compatible files can be previewed to the right of the file chooser. Selecting a document adds it to the collation and re-collates the comparison set to take into account this new addition.

The Bibliographic Information Dialog can be summoned by clicking on the Bibliographic Info Button on the toolbar. This dialog allows the user to view and update the bibliographic information for the currently selected document. The short title displayed here is used to identify this document in the Comparison Explorer and is also used as the witness sigla for this document in an exported critical apparatus. In fact, the entirety of the bibliographic information is output as part of the critical apparatus.

The Edit Note Dialog allows the user to view and update the currently selected note. Checking the “Include Image” box adds a link to the base-text's image for this note in the critical apparatus. The image is obtained from the XML location marker that denotes the location of this difference.

The Find Dialog allows for simple text search in the currently selected document. “Wrap Search” permits Juxta to search over line breaks.

The Collation Histogram dialog displays a graph of the frequency of difference over the length of the currently selected document. The green highlighted area depicts the portion of the document currently visible on the screen. The short name of the currently selected document is displayed below the graph.
Also below the graph is the Filter Strength Slider. This slider allows the user to temporarily filter out minor differences in spelling and punctuation in order to reveal more substantive differences. This feature is especially useful in large documents with many minor changes.

When documents are added to the comparison set, Juxta automatically collates them against all of the other documents in the set. The Collation Dialog is useful when you wish to re-collate the comparison set with new filter settings. The following filters are available: ignore white space; ignore punctuation; and ignore case.