NAME

       ct2db - manual page for ct2db 2.4.17

SYNOPSIS

       ct2db [OPTION]... [FILE]...

DESCRIPTION

       ct2db 2.4.17

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

       Convert Zuker's .ct files to dot-bracket string

       -h, --help
              Print help and exit

       -V, --version
              Print version and exit

       -p, --removePK
              Remove pseudoknots from structure (default=off)

       -c, --convertToRNA
              Substitute  all  nucleotides with their RNA alphabet counter parts, i.e. convert to
              characters A, C, G, U or N for unknown bases.

              (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.