Changes in version 5.1 (Apr 13, 2020)

New Functionality:

• Enabled DNA and protein sequence windows to be split to show two views, one above the other.
  (Requested over the years by multiple users)
• Added support in the Description Panel for various reference types including books, database entries, patents (which can be imported from online databases), theses, web links, and more.
• Configured /citation qualifier values to link to specific references, which are accessible via tooltips and clickable links in Features view.
• Added optional page number entries for /citation qualifiers.
• Enabled enzyme visibility to be adjusted in Enzymes view using check boxes, mirroring the controls used for Features and Primers views.
• Enabled flexible feature detection with an adjustable similarity threshold when importing features from another file.
• Added support for exporting aligned sequence trace data using a tab-separated format.
  (Requested by Yves Girerd-Chambaz)
• Enabled BLAST for multiple selected sequence files in a collection.
  (Requested by Charles Dozois)
• Added a pre-defined enzyme set for Type IIS enzymes.
• Enabled import of features or primers from another file, or detection of common features, for multiple selected DNA files in a collection.
  (Requested by Michael Gotrik)
• Enabled simultaneous flipping of multiple selected DNA sequences in a collection.
• Added support for linking folders of the same name in different areas of a collection, with "Go to ..." shortcuts for switching between related folders in different areas.
  (Requested by Mily Ron)
• Enabled the "Make Protein" and "Reverse Translate" commands, when operating within a collection, to save the output files to a linked folder in a different area of the collection.
• Added support for batch replacement of Description Panel fields for files in a collection.
  (Requested by Samuel Tremblay-Belzile)
• Added MW markers from Nacalai Tesque.
  (Requested by Tomonori Hoshino)
• Added MW markers from FroggaBio.
  (Requested by Michael Ostrovski)
• Added MW markers from Newmarket Scientific.
  (Requested by Sabrina)
• Added the remaining TrackIt™ MW markers from Thermo Fisher.
  (Requested by Slava Gurevich)
• Improved feature tooltips when using compact mode in Sequence view.
  (Requested by Bandar)

Enhancements:

• Reduced the height of linear maps by enabling items to be superimposed without sacrificing legibility.
  (Requested by Vishal Chaudhari)
• Changed the defaults to show HF® and FastDigest® information in the Restriction Enzymes dialog, while allowing these defaults to be adjusted.
  (Requested by Silvana Jirka)
• Enhanced the File > Export cascading menu to enable export of multiple files or a list of files from a collection.
  (Requested by Gurumoorthy Krishnamoorthy)
• Added support for a color attribute when importing features from GFF3 format.
  (Requested by Matthew Kirk)
• Added support for specifying the line break characters when exporting to text file formats.
  (Requested by Tim Fallon and Tom Chappell)
• Enabled long map labels to span two lines in circular Map view.
  (Requested by Chun Cao)
• Configured Sequence view to retain visibility of the scrolled region when toggling horizontal scrolling.
  (Requested by Kengo Adachi)
• Enhanced the flexibility of code number display in collection lists.
  (Requested by Tim Nierhaus)
• Added a keyboard shortcut for "Import UniProt Sequences".
  (Requested by James Wright)
• Enabled colors in multiple sequence alignments to be copied to the clipboard.
  (Requested by Monir Ejemel)
• Added support for importing Vector NTI Express Designer databases
  (Requested by Dave Karig)
• Provided the option to differentiate "A" traces using a striped pattern for users with color vision disabilities.
• Provided an adjustable similarity threshold for detecting common features.
• Enabled the "Make Protein", "Reverse Translate", and "New File From Selection" commands to save the output files to the same collection.
• Allowed the genetic code to be specified when converting a selection in a DNA alignment to a protein alignment.
• Ensured that when sorting by Code Number or Alias in a collection, any files with blank entries are placed at the end of the list.
• Converted SnapGene to a 64-bit application on Windows, thereby improving performance and stability.
• Ensured that scrollbars are shown only when necessary in Map, Sequence, and History views.
• Improved the wording in the Restriction Enzymes dialog to make it clearer when a supplier offers multiple variants of an enzyme.
• Changed the License Agreement dialog so that it is no longer modal, and added support for printing or saving this document using keyboard shortcuts.
• Made various textual, color, and icon enhancements.

Fixes:

• Configured the Find control to show bottom strand results when using compact format in Sequence view.
  (Requested by Bandar)
• Prevented extra line breaks from appearing after export of some qualifier values to GenBank and EMBL formats.
  (Reported by Karen Ross)
• Ensured that all controls in alignment dialogs can be translated into Japanese or Chinese.
• Ensured that collection folder names for selected items never appear in List view.
• Enabled scrolling up using Shift + Spacebar in Sequence view.
• Fixed paging up and down using Function + Up/Down keys, and scrolling to the start or end of the sequence using Function + Left/Right keys.
• Ensured that ancestral blunt cutters can be shown in green in History view after import from Vector NTI® or other file formats.
• Prevented unnecessarily asking to add methylation when specifying "Escherichia coli" as the Source for a Natural DNA sequence.
• Corrected an error with internal array data when editing trace sequences.
• Ensured that linearizing or circularizing a DNA sequence populates the Sequence Author field with the default author.
• Configured Enzymes view to show enzyme sites in red upon mouseover in both the main view and the lower map.
• Corrected codon frequencies for reverse directional ORFs.
• Ensured that the Description Panel flows to the bottom of the window when zoom controls are shown.
• Fixed various issues with importing primers into DNA files in a collection.
• Ensured that the map label in a circular map never overlaps features.
• Disable menu File > Export > History when no history exists in sequence file.
• Fix Blasting selected primer in a collection file.
• Fix Tools > Blast Selected Protein with a collection file.
• Ensured that the Previous button in the Find controls is shown in blue only if the Shift key and no other key is pressed.
• Adjusted the behavior for sequence traces so that mousing over an ambiguous base darkens the curves for multiple bases.
• Prevented accented characters from being accidentally inserted into a DNA or protein sequence when holding down letter keys on macOS.
• Improved the foreground color within features while using compact Sequence view.
• Improved feature pliancy while using compact Sequence view.
• Fixed an issue in which pressing the Shift key resulted in a button changing color in the "Import Features from a SnapGene File" and "Detect Common Features" dialogs.
• Improved the look and feel of controls for Enzymes view on Windows.
• Preserved formatting when creating hyperlinks.
• Improved horizontal alignment of values shown in the Properties tab for protein sequences.
• Enabled proper export of /citation qualifier values to GenBank, GenPept, and EMBL formats.
• Ensured that suppliers remain selected after dragging them in the Enzymes tab of the Preferences dialog.
• Updated the MW calculation for a full sequence in the DNA Calculations window after 5' phosphates are added or removed.
• Enabled bottom strand matches to search queries in Sequence view when using compact mode.
• Ensured that qualifier selections in Features view are cleared when selecting features or transferring focus to the Description Panel.
• Configured a collection to show and select imported files even when those files are not in the currently chosen category.
• Fixed an issue that could result in labels for Site features not being shown entirely within a protein sequence window.
• Improved the horizontal placement of names and connecting lines for site features in Sequence view.
• Fixed an issue in which selections in Features and Primers views sometimes remained blue after focus was transferred to the Description Panel.
• Disabled controls for setting the DNA color when using either compact Sequence view or Map view with features on the DNA line.
• Fixed issues with displaying enzymes that make two double-stranded cuts when a site is near the end of a linear sequence.
• Improved stability when importing Vector NTI Express Designer enzyme names
  (Reported by Dave Karig)