NAME

       ct2db - manual page for ct2db 2.5.1

SYNOPSIS

       ct2db [OPTIONS] [<input0.ct>] [<input1.ct>]...

DESCRIPTION

       ct2db 2.5.1

       Produce dot bracket notation of an RNA secondary structure from Zuker's .ct file

       This  program  converts  connectivity  table  (.ct)  files into extended FASTA format with
       dot-bracket string.

       -h, --help
              Print help and exit

       -V, --version
              Print version and exit

       -p, --no-pk
              Remove pseudoknots from structure

              (default=off)

       -m, --no-modified
              Do not keep modified bases, i.e. replace all non-canonical nucleotides with N.

              (default=off)

       -v, --verbose
              Be verbose.

              (default=off)

REFERENCES

       If you use this program in your work you might want to cite:

       R. Lorenz, S.H. Bernhart, C. Hoener zu Siederdissen, H. Tafer, C. Flamm, P.F. Stadler  and
       I.L. Hofacker (2011), "ViennaRNA Package 2.0", Algorithms for Molecular Biology: 6:26

       I.L.  Hofacker,  W.  Fontana,  P.F. Stadler, S. Bonhoeffer, M. Tacker, P. Schuster (1994),
       "Fast Folding and Comparison of RNA Secondary Structures", Monatshefte f. Chemie: 125,  pp
       167-188

       R.  Lorenz,  I.L.  Hofacker,  P.F.  Stadler  (2016),  "RNA  folding  with  hard  and  soft
       constraints", Algorithms for Molecular Biology 11:1 pp 1-13

REPORTING BUGS

       If in doubt our program is right,  nature  is  at  fault.   Comments  should  be  sent  to
       rna@tbi.univie.ac.at.