ct2db − manual page for ct2db 2.4.11
ct2db [OPTIONS]... [FILES]...
Produce dot bracket notation of an RNA secondary structure from Zuker’s .ct file
Zuker’s .ct files to dot−bracket string
Print help and exit
Print version and exit
Remove pseudoknots from structure (default=off)
Substitute all nucleotides with their RNA alphabet counter parts, i.e. convert to characters A, C, G, U or N for unknown bases.
Be verbose (default=off)
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
If in doubt our program is right, nature is at fault. Comments should be sent to firstname.lastname@example.org.