codaln specifications


Unique identifier OMICS_23854
Name codaln
Alternative name code2aln
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data Some nucleic acid sequence files.
Input format FASTA,GENBANK
Operating system Unix/Linux
Computer skills Advanced
Version 1.0
Stability Stable
Maintained Yes


No version available


  • person_outline Peter F. Stadler
  • person_outline Ivo Hofacker
  • person_outline Roman Stocsits
  • person_outline Roman Stocsits
  • person_outline Claudia Fried

Publication for codaln

codaln citation


Detecting overlapping coding sequences in virus genomes

BMC Bioinformatics
PMCID: 1395342
PMID: 16483358
DOI: 10.1186/1471-2105-7-75

[…] ted under the GNU General Public License) may be downloaded and used locally. To install the software locally, the publicly available packages EMBOSS [] and R [] must also be installed. The programme codaln [] is recommended for aligning the input sequences. Run-time and resource-use scale approximately linearly with the number of sequences and the length of the input alignment. On a Pentium 4 2.8 […]

codaln institution(s)
Interdisciplinary Centre for Bioinformatics, University of Leipzig, Leipzig, Germany; Institute for Theoretical Chemistry, University of Vienna, Wien, Austria; Bioinformatics Group, Department of Computer Science, University of Leipzig, Leipzig, Germany; Santa Fe Institute, Santa Fe, NM, USA
codaln funding source(s)
Supported by the Austrian Fonds zur Förderung der Wissenschaftlichen Forschung, Project Nos. P-13545-MAT and P-15893, and the German DFG Bioinformatics Initiative.

codaln reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review codaln