Home » Release Notes » 5.2.0

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.