STRIKE
A sequence alignment scoring tool


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What is STRIKE?

STRIKE (Single sTRucture Induced Evaluation) is a program to evaluate protein multiple sequence alignments using a single protein structure.


DOWNLOAD

  • Download the package here




INSTALLATION

Typing 'make' in the command line will produce the executable.





The Program

STRIKE uses the STRIKE matrix to evaluate an alignment. This matrix gives a score for a contact similar to the Blosum matrix which gives a score to each nucleotide match. Contacts from the given structure are projected onto the alignment and each projected contact is scored. The result is a single score for the whole alignment. The higher the score, the better is the agreement between alignmetn and structure.


DOCUMENTATION

A detailed description is given in the incorporated Readme. The basic command is the following one:

Compute the score of an alignment:
strike -c <template_file> -a <alignment_file>



CONTACT

Our projects rely on your feeback. Please send me an E-mail if you wish to make a request, a comment, or report a bug!

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Dr. Cedric Notredame, PhD.
Group Leader
Comparative Bioinformatics Group
Bioinformatics and Genomics Programme
Center for Genomic Regulation (CRG)
Dr Aiguader, 88
08003 Barcelona
Spain
Email: cedric.notredame@europe.com
HOME : http://www.tcoffee.org/homepage.html
GROUP: CRG
Phone: +34 933 160 271
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