Reaction Decoder Tool (RDT)
Pre-release
Pre-release
Reaction Decoder Tool (RDT)
Atom Atom Mapping (AAM) Tool, Reaction Annotator and Comparator
How To Compile the code?
Ant Build
CLEAN:
ant clean
BUILD:
ant compile
DIST:
ant jar
DOC:
ant javadoc
TEST:
ant test
HELP:
ant run
Perform AAM
a) AAM using SMILES
java -jar ReactionDecoder.jar -Q SMI -q "CC(O)CC(=O)OC(C)CC(O)=O.O[H]>>[H]OC(=O)CC(C)O.CC(O)CC(O)=O" -g -j AAM -f TEXT
b) Annotate Reaction using SMILES
java -jar ReactionDecoder.jar -Q SMI -q "CC(O)CC(=O)OC(C)CC(O)=O.O[H]>>[H]OC(=O)CC(C)O.CC(O)CC(O)=O" -g -j ANNOTATE -f XML
Compare Reactions
a) Compare Reactions using SMILES with precomputed AAM mappings
java -jar ReactionDecoder.jar -Q SMI -q -Q RXN -q example/ReactionDecoder_mapped.rxn -T RXN -t example/ReactionDecoder_mapped.rxn -j COMPARE -f BOTH -u
b) Compare Reactions using RXN files
java -jar ReactionDecoder.jar -Q RXN -q example/ReactionDecoder_mapped.rxn -T RXN -t example/ReactionDecoder_mapped.rxn -j COMPARE -f BOTH