biOpen
biOpen 2.3
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Sequence analysis and structure visualizer.   Demo
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  • biOpen has been discontinued
  • Developer
    AbOrygen
biOpen is a new and unique DNA and protein sequence analysis and structure visualization software based on dynamic integration of analysis tools. This evaluation version includes the interactive multiple trace view, the Documentation window, DNA/RNA analysis tools (including Contig Assembly), Protein analysis tools (including Coils and TMpred) and sequence alignment tools (including PROBCONS).

Main features are:
  • Extensive modularity: biOpen allows you to select the analysis tools you need and to work in a fully integrated environment.
  • Easy evolution of your configuration:
What's New
Version 2.3: Release notes were unavailable when this listing was updated.
Requirements
PPC, Mac OS X 10.2 or later

*Previously available here



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biOpen User Discussion (Write a Review)
ver. 2.x:
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Overall:
(2)

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burypromote


Anonymous reviewed on 11 Mar 2005
I chose to buy BioOpen after struggling for years with various open source and home grown programs. I was attracted to the idea of harnessing the often excellent open source programs that are out there into a single app with capacity to hold together a bunch of sequences relating to a particular project. It was obviously new software and I anticipated the odd glitch. After 6 months use I'm very happy with its performance, and with the rapid response of the developers to the few problems I've found (all to do with interface rather than data integrity).
I use BioOpen principally for planning construction of expression plasmids, so most use the restriction enzyme, ORF and alignment capabilities. All are good. The 3D imaging capability is nice for correlating structure with sequence and for fairly quickly obtaining nice pictures, but I still use VMD for anything heavier. It handles lots of formats and eases interaction with the many web-based services I use.
The principal competition is MacVector which is more comprehensive, more mature, and much more expensive. The interface is old, copy protection irritatingly pervasive, and in my experience (prolonged problems with local proxy servers), their commitment to technical support is weak. Much of what I do is done well by GeneConstructor. but that feels very much like an Os9 app just managing in Os X, and has not been updated for years.
[Version 1.5.1]


burypromote


Anonymous reviewed on 09 Jun 2004
Some information as to pricing of this on the developers website would certainly help one decide if it is worth evaluating
[Version 1.0.1]

1 Reply

burypromote
Anonymous commented on 23 Nov 2004
A price list in now available on the developer site.
There are currently no troubleshooting comments. If you are experiencing a problem with this app, please post a comment.

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Downloads:4,464
Version Downloads:1,887
Type:Education : Science
License:Demo
Date:22 Oct 2006
Platform:PPC 32 / OS X
Price:Free0.00
Overall (Version 2.x):
Features:
Ease of Use:
Value:
Stability:
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biOpen is a new and unique DNA and protein sequence analysis and structure visualization software based on dynamic integration of analysis tools. This evaluation version includes the interactive multiple trace view, the Documentation window, DNA/RNA analysis tools (including Contig Assembly), Protein analysis tools (including Coils and TMpred) and sequence alignment tools (including PROBCONS).

Main features are:
  • Extensive modularity: biOpen allows you to select the analysis tools you need and to work in a fully integrated environment.
  • Easy evolution of your configuration: you can get new tools and integrate them in your biOpen configuration when needed.
  • 3D visualization: the relations between the sequence and its structure can be studied with one single software: simply select a part of the sequence and see it light up on the structure.
  • Powerful display features: fully synchronized views, dynamic display of analysis results, automated extraction and display of annotations of GenBank sequence files, and even more.
  • Project management: organize and save your sequences, structures and results very easily. Import most popular file formats, including DNA Strider. Projects can be exchanged with your work colleagues.
  • Graphical export: biOpen views can be simply exported in your favorite word processor or presentation software. You just have to perform a selection and drag and drop it to your document.


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