Difference between revisions of "ABBA"

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== Documentation ==
 
== Documentation ==
  
Documentation on running ABBA is included in the tarball here: ftp://ftp.cbcb.umd.edu/pub/data/dsommer
+
Documentation on running ABBA is included in the tarball here: ftp://ftp.cbcb.umd.edu/pub/data/dsommer/abba.tgz
  
  
"NOTE: ABBA relies on other tools in the AMOS package, so you need
 
to download and install AMOS as well."
 
  
 
== References ==
 
== References ==

Revision as of 19:55, 17 February 2011

ABBA: Assembly Boosted By Amino acid sequences

Overview

Assembly Boosted By Amino acid sequence is a comparative gene assembler, which uses amino acid sequences from predicted proteins to help build a better assembly. See the journal paper.

For additional information on short read assembly check the following University of Maryland CBCB web sites:


Documentation

Documentation on running ABBA is included in the tarball here: ftp://ftp.cbcb.umd.edu/pub/data/dsommer/abba.tgz


References

Gene-Boosted Assembly of a Novel Bacterial Genome from Very Short Reads.

Salzberg SL, Sommer DD, Puiu D, Lee VT 2008 PLoS Computational Biology 4(9): e1000186 doi:10.1371/journal.pcbi.1000186


Acknowledgements

The development of ABBA was supported by the National Institutes of Health under grants R01-LM06845 and R01-LM007938 to SLS.