Question

Programming Ramachandran Plot

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11.6 years ago

potassiumiodide0990 ▴ 80

How do I program for Ramachandran plot in Java. Is there any module available in Biojava ? Please help

java biojava • 4.6k views

ADD COMMENT • link updated 11.6 years ago by andreas.prlic ▴ 290 • written 11.6 years ago by potassiumiodide0990 ▴ 80

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what's your input ?

ADD REPLY • link 11.6 years ago by Pierre Lindenbaum 164k

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a PDB file would be my input

ADD REPLY • link 11.6 years ago by potassiumiodide0990 ▴ 80

score 2 · Answer 1 · 2013-04-16

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11.6 years ago

Ben ★ 2.0k

I'm not aware of a BioJava function but this page lists a few online tools, including RAMPAGE. The author also gives a great tutorial on drawing a Ramachandran plot in R.

ADD COMMENT • link 11.6 years ago by Ben ★ 2.0k

score 1 · Answer 2 · 2013-04-16

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11.6 years ago

andreas.prlic ▴ 290

You can calculate Phi and Psi angles using BioJava and then plot them using your own plotting code.

ADD COMMENT • link 11.6 years ago by andreas.prlic ▴ 290