Show
A 3D visualization program for displaying the lattice conformations
of RNA secondary structures and for playing RNA folding movies.
OPTIONS
- -i file
-
Read the sequence of bases (and optionally the sequence of turn directions)
in seq or seq2 format from file.
- -i2 file
-
Read base pairs in bp format from file.
If file is not specified, then all complementary bases
adjacent in the lattice are considered base pairs.
- -o file
-
Write lattice conformation
(a sequence of bases and a sequence of turn directions)
in seq2 format to file when requested by user.
- -movie
-
Turn on movie mode.
Read the movie sequence of pull moves from stdin;
each line of the input
contains two numbers for the base index and the turn direction
of a pull move.
By default, movie is off.
EXAMPLES
- ./show.exe -i xxx.seq2
-
Display lattice conformation xxx.seq2.
- ./show.exe -i xxx.seq2 -i2 xxx.bp
-
Display lattice conformation xxx.seq2 with base pairs xxx.bp.
- ./show.exe -i xxx.seq2 -o yyy.seq2
-
Display lattice conformation xxx.seq2
and save modified conformation to yyy.seq2 when requested by user.
- ./fold.exe -i xxx.seq -movie | ./show.exe -i xxx.seq -movie
-
Play folding simulation movie for xxx.seq.
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