What's new in EnzymeX 3.1
Jun 2, 2008
- Fixed a serious bug where non-palindromic cutters were only found in one direction
- Significantly speed up the searching algorithm (3-5x)
- Progress sheet is only shown when search will take longer than a few seconds. Delay time can be set in preferences.
- Improved the enzyme inspector to always represent the selected enzyme AND selected set of the main window
- Improved searching on enzymes in the different seachfields
- Improved selection in sequence and translation textviews
- Added a Spotlight based file browser (10.4 Tiger only)
- Added a Spotlight importer plugin
- Enzyme map is now correctly recalculated when switching sets
- Ambiguous base variants other than N are now preserved and automatically converted to N.
- Faster filtering of non-supported characters
- Enzymes that do not cut can now still be added to the digest reaction
- Editing of the sequence now properly preserves the marked region
- Removed warning that a set does not contain any enzymes that would keep popping up in the inspector
- Added support for reverse selection in translation modus
- Added contextual menus in textviews
- Added option to copy sequence to new window
- Added small indicators of cut sites in the enzyme sequence to help visualize the cleavage positions of enzymes like DpnII and FatI
- Added Constructs preference pane with option to choose default enzyme set and cutter preset when opening a new DNA construct
- Added support for reverse open reading frames
- Added support for copying sequence and translation of selected open reading frames and digest fragments
- Full-length open reading frame are found without the need for a stop codon
- You can now open recent documents while the chooser is active.
- Improved plugin architecture
- Added 4Peaks to EnzymeX plugin (will be automatically installed when 4Peaks is installed)
- Added more fail-safe behaviour when installing plugins
- Created a Quick Translation plugin available for download
- Enzymelist now shows cutposition in recognition sequence and resolves ambiguous bases for unique enzymes
- Clicking on the enzyme inspector now brings EnzymeX to the front
- Selecting an open reading frames will now move the selection to that start codon
- Updated look of several tableviews
- Doubledigest window now updates automatically upon opening
- The setswitching corner now popups upon mousedown already.
- If used solely as a viewer of non-native (non-exdna) files, documents are only marked as edited when the sequence is edited.
- Enzyme filtering on sequence better supports ambiguous bases
- Improved first responder status of sequence textview
- Moved translation dictionary to edit menu
- Fixed a bug where the first 10 nucleotides of a sequence smaller than 1 line could not be selected
- Fixed a bug where closing a document while speaking could lead to a crash
- Fixed reading of raw text files with returns
- Fixed reading of Strider and GCK files on intel-based macs
- Added support for reading rtf textfiles
- Added support for reading APE (A Plasmid Editor) files
- Added support for localization