ABCC : Application's document Page

COVE At ABCC
Name: 
COVE
Version(s): 
2.4.4
Category: 
RNA Analysis, Sequence Analysis, Bioinformatics
Author(s)/Vendor(s): 
Sean Eddy
Dept. of Genetics
Washington U. School of Medicine, St. Louis
Program Description: 
COVE is a program to perform RNA sequence/structure analysis. 

COVE evaluates covariance models of RNA sequence and structure. RNA covariance 
models are full probabilistic models which describe the primary sequence and 
secondary structure consensus of an RNA family.
They can be used for the following analysis tasks:

  - secondary structure-based multiple sequence alignment
  - consensus secondary structure prediction
  - secondary structure-based database searching

COVE is an implementation of the algorithms described by Sean Eddy and 
Richard Durbin in "RNA Sequence Analysis Using Covariance
Models", Nucl. Acids Res. 22:2079-2088, 1994.
Computer platform(s): 
SGI Irix, Linux
Location: 
/usr/local/fbscapp/cove-2.4.4
Access: 
Account on ABCC's SGI or Linux systems is required to use COVE.

When using C-shell:
 set path = ($path /usr/local/fbscapp/cove-2.4.4/bin)
followed by the name of one of COVE's executables
Documentation: 
User's guide is available:
- TeX format - file Guide.tex in COVE's main directory
- Postscript format - file Guide.ps in COVE's directory

There are also demos available. Read file DEMO in COVE's main
directory for instructions.
Web Site: 
http://www.genetics.wustl.edu/eddy/software/
ABCC Contact Person: 
Sarangan Ravichandran
301-8461991
sravi@ncifcrf.gov
Created By: 
miaskiew
Created Time: 
2002-05-31
Updated By: 
miaskiew
Updated Time: 
2004-11-05
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