SEQREP1 is a Java application that implements virtual potentials for the representation of DNA sequences. In the current version the main functionalities of the software are

• Coding DNA sequences into SEQREP codes starting from FASTA files.

• Training Kohonen self-organizing maps (SOMs) with DNA sequences represented as SEQREP codes, and visualization of the results.

• Application of trained SOMs to new sequences (mapping of the sequences and their automatic classification).

Documentation is included in the zip file and is also available online.

Screenshots are available.

Reference: J. Aires-de-Sousa, L. Aires-de-Sousa, “Representation of DNA sequences with virtual potentials (SEQREP) and their processing by Kohonen self-organizing maps”, Bioinformatics, 2003, 19(1), 30-36.

Copyright and Disclaimer SEQREP1 software is copyright © 2002 by Dr. Joao Aires de Sousa (jas@mail.fct.unl.pt). All rights reserved. Dr. Joao Aires de Sousa provides the accompanying software "as-is", without warranties of any kind; even including the implied warranty of fitness or merchantability for any particular purpose. Dr. Joao Aires de Sousa herein expressly disclaims all warranties on this software, either express or implied. Dr. Joao Aires de Sousa may not be held liable for any damages, incidental or consequential, occuring from the use of the accompanying software, even if he has been advised of the possibility of such damage.