Changes in version 5.2 (Oct 13, 2020)

New Functionality:

• Enabled visualization of GC content as a color plot in Map view or base colors in Sequence view.
  (Requested by Michael Brooks, Max Garwood, Robb Stankey and others)
• Added support for finding similar DNA sequences with mismatches or indels compared to the search query.
  (Requested by multiple users)
• Added support for simulating the migration of supercoiled DNA molecules in agarose gels using TBE, TAE or SB buffer.
  (Requested by multiple users)
• Added support for single-stranded DNA (ssDNA) sequences.
  (Requested by John O'Brien and others)
• Enabled import of Sequencher project files (*.spf).
  (Requested by May Cindhuchao, Heather McFarlane, and Usua Oyarbide)
• Enabled "Undo" for edits in large sequences.
• Added DNA ladders from DyneBio.
  (Requested by Dae-Geun Song)
• Added supercoiled MW markers from ELPIS BIOTECH and New England Biolabs.
• Added BsmBI-v2 to the list of enzymes available from New England BioLabs.
• Added fields for username and email address in the license registration dialog.

Enhancements:

• Optimized storage of history for the following operations: Change Methylation, Change Transformation Strain, Set Origin, Flip, Insert/Delete/Replace, Linearize, Circularize.
  (Requested by Dan Lysko, and by others who complained about large files)
• Updated the supported protein feature types by adding new types (NonStdRes, Protein, Precursor, SecStr, Het, CDS, gene, misc_feature, unsure, variation), promoting Region subtypes to types, and adding new Site and Bond subtypes.
  (Requested by Sanofi)
• Added a note in Features view to indicate the presence of internal stop codons in a translated feature.
  (Inspired by Tom Hamer)
• Enhanced the Preferences tools to allow more flexible default options for displaying ORFs.
  (Requesed by Caroline Reiss)
• Enabled carrying over feature qualifiers when creating a protein sequence using "Make Protein" or "Reverse Translate".
  (Requested by Katherine Geromini)
• Added the option to merge segments when using "Make Protein" on a multi-segment DNA feature.
• Added a "Hide noncutters" check box in the Choose Enzymes dialog.
  (Inspired by Bruce Lahn)
• Enabled importing features from any supported file type when using "Import Features from a SnapGene File".
  (Requested by Greg Perry)
• Enabled more flexible batch conversion of chromatogram traces to other formats.
  (Requested by Arthur Fridman)
• Improved search performance for large DNA sequences.
• Configured the minimap to show both scrolled areas when two copies of Sequence view are visible.
• Updated the format of the Preferences dialog, and added an "Agarose Gels" tab.
• Added the option to designate a new collection as the Main Collection.
• Enabled saving imported online sequences directly to a collection.
• Added shortcuts in a collection Overview for navigating to the DNA Files, Protein Files, or Miscellaneous Files sections.
• Enabled symbols to be entered in search queries when searching SnapGene Online Sequences.
• Increased the size of the length indicator in the map label at the "Small" font size.
• Consolidated all Fisher MW Markers for agarose gels in the Fisher Scientific set.
• Configured the Nonredundant Commercial enzyme set to include similar enzymes that differ by methylation sensitivity.
• Configured SnapGene to show the Launch dialog on macOS when the SnapGene icon in the Dock is clicked, if no SnapGene windows are open.
• Changed the icon for enabling interrupted circle format for a linear DNA sequence in Map view.
• Configured the "Export Map" and "Export History" options to be always enabled.
• Improved the wording of various menu options and dialogs to provide greater clarity and consistency.
• Added a message informing the user that files can be dragged into the list when using Align Multiple Sequences.

Fixes:

• Fixed an issue that prevented cloning dialogs from allowing the use of hidden enzymes.
  (Reported by Mily Ron)
• Corrected an issue in "Protein Search" whereby terminal stop codons were not included in the search query.
  (Reported by Mike Xie)
• Ensured that edits in an alignment window do not cause inappropriate scrolling.
  (Reported by Beth Lawrence)
• Corrected an issue that could prevent alignment of a high-quality sequence trace.
  (Reported by Jessie Saul)
• Ensured that the "Find" control in the Enzymes view chooser always shows a message to indicate if the enzyme is not in the chosen set.
• Corrected an issue in which U's in overhangs resulting from linearizing were not preserved.
• Configured "Select All" in the trace viewer context menu to actually select all.
• Ensured that History view reflects changes after editing DNA ends.
• Ensured that case changes in the "Find" entry field are preserved when the search is executed.
• Ensured that imported RNA alignments are converted to DNA rather than protein alignments.
• Corrected the license inactivity countdown to displays seconds rather than milliseconds.
• Ensured that the "Accession Number:" label remains next to its entry field in the collection Search dialog.
• Ensured that a "Sequence Name" search in the Protein Files area of a collection also searches the map labels and aliases.
• Corrected an issue that resulted in alignment and collection windows not showing unsaved changes in the title bar on Windows and Linux.
• Ensured more consistent sorting of enzymes in the Choose Enzymes dialog.
• Streamlined the substitution matrix options presented when computing pairwise alignments.
• Ensured that open alignments can be used as profiles when computing new alignments.
• Corrected an issue that could result in the "Kind" column disappearing when viewing a collection.
• Ensured that crisp screenshots are shown when detecting updates.
• Improved import of the full publication date from PubMed.
• Made various stability fixes.