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NAME
analyze - calculate nucleic acid structural parameters
SYNOPSIS
analyze [OPTION] [FILE]...
DESCRIPTION
calculate various nucleic acid structural parameters (propeller,
slide, roll, twist, backbone torsions etc.) from FILEs (stdin by
default), and generate input to other utility programs.
-c output structural parameters between helical regions
("----" by default). The same effect can be achieved by
directly modifying the input file (change "9" or "1" to
"0" in the third column of each base pair list.)
-h this help message (any non-recognized options will do)
INPUT
given a PDB file "sample.pdb", the input to analyze can be most
conveniently generated with the utility program find_pair:
find_pair -t sample.pdb sample.inp
EXAMPLES
analyze sample.inp
analyze sample1.inp sample2.inp sample3.inp
find_pair -t sample.pdb stdout | analyze
find_pair -t sample.pdb stdout | analyze -c
OUTPUT
sample.out, auxiliary.par, bp_step.par, bp_helical.par,
cf_7methods.par, ref_frames.dat, poc_haxis.r3d, stacking.pdb
hstacking.pdb
SEE ALSO
find_pair, rebuild, frame_mol, ex_str, stack2img, cehs
AUTHOR
Written by Xiang-Jun Lu at Wilma K. Olson Laboratory at Rutgers
Check URL: http://rutchem.rutgers.edu/~xiangjun/3DNA/
Report bugs to
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