RNA Comparative Analysis Software Tools 1.0

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Downloads: 216
Change Set: 46102
Released: Jan 29, 2010
Updated: Feb 16, 2010 by kjdoshi
Dev status: Stable Help Icon

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Release Notes

RNA Comparative Analysis Software Tools Version 1.0

Note: The RNA Comparative Analysis Software Tools are provided as is, without any warranty.

The RNA Comparative Analysis Software tools is an advanced software infrastructure for the high-throughput Comparative Analysis of RNA sequences and structure.

The RNA Comparative Analysis Software tools consist of two major components:

RNA Comparative Analysis Database (rCAD) Comparative Analysis Toolkit User Interface (CATUI)
  • Current Version: CATUI 2.0.
  • Can be installed standalone.

Minimum Installation Prerequisites:
  • Microsoft Windows XP SP3, Vista, Windows 7 or Windows Server
  • .NET Framework 3.5, SP1
  • rCAD: SQL Server 2008 Express Edition
  • 4GB Memory

Recommended Prerequisites:
  • CATUI: 3-D Discrete Graphics Card
  • Server grade processor (Intel Xenon or equivalent)
  • >4GB Memory
  • rCAD: Internet access (for the rCAD Taxonomy Updater Utility)
  • rCAD: SQL Server 2008 Standard Edition or higher and Integration Services

rCAD Reference Implementation Version 1.00.00 (Back to Top)

  • The rCAD Utilities are provided as 32bit and 64bit binaries.
  • The rCAD Reference Implementation is the rCAD database and a set of software utilities (rCAD Utilities) for creating and maintaining rCAD database instances.
  • The SQL queries for the rCAD database schema are within the documentation attached to this release.
  • rCAD Reference Implementation Discussion Thread is available here

rCAD Datasets:
Installing the Reference Implementation:
rCAD Utilities:

CATUI Version 2.00.00 (Back to Top)

  • Note: The CATUI is not currently functional for sequence alignment editing work, but is functional for sequence alignment visualization.
  • There appears to be an issue with the CATUI 2.0 on computers with .NET 4.0, Beta 2 installed. We do not know the source of the incompatibility, but the CATUI application crashes on startup.
  • CATUI Installation instructions available here.
  • CATUI 2.0 Documentation is available in the Documentation section.
  • CATUI 2.0 Discussion Thread is available here.

CATUI 2.00 Data Sets:
Design Highlights over CATUI 1.0:
  • CATUI Alignment Browser
    • Rendering of alignments stored in rCAD
    • Sorting sequences in an alignment visualization by Taxonomy (rCAD alignments)
    • Setting reference sequences

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