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PerlMol is a collection of Perl modules for chemoinformatics and computational chemistry with the philosophy that "simple things should be simple". It should be possible to write one-liners that use this toolkit to do meaningful "molecular munging".
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ChemistryLicense
Artistic License, GNU General Public License version 2.0 (GPLv2)Follow PerlMol
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User Reviews
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Too many errors and examples don't work
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PDB input/output is with bugs, but in general I really like this project.