| Name | Description | Type | Package | Framework |
| AbstractDifference | Class | org.openscience.cdk.tools.diff.tree | CDK | |
| AbstractDifferenceList | Diff between two IChemObjects. | Class | org.openscience.cdk.tools.diff.tree | CDK |
| AtomContainerDiff | Compares two IAtomContainer classes. | Class | org.openscience.cdk.tools.diff | CDK |
| AtomDiff | Compares two IAtom classes. | Class | org.openscience.cdk.tools.diff | CDK |
| AtomTypeDiff | Compares two IAtomType classes. | Class | org.openscience.cdk.tools.diff | CDK |
| AtomTypeHybridizationDifference | IDifference between two IAtomType. | Class | org.openscience.cdk.tools.diff.tree | CDK |
| BondDiff | Compares two IBond classes. | Class | org.openscience.cdk.tools.diff | CDK |
| BondOrderDifference | IDifference between two IBond. | Class | org.openscience.cdk.tools.diff.tree | CDK |
| BooleanArrayDifference | Difference between two boolean[]'s. | Class | org.openscience.cdk.tools.diff.tree | CDK |
| BooleanDifference | IDifference between two Booleans. | Class | org.openscience.cdk.tools.diff.tree | CDK |
| ChemObjectDiff | Compares two IChemObject classes. | Class | org.openscience.cdk.tools.diff | CDK |
| ChemObjectDifference | IDifference between two IChemObjects. | Class | org.openscience.cdk.tools.diff.tree | CDK |
| DoubleDifference | IDifference between two Double. | Class | org.openscience.cdk.tools.diff.tree | CDK |
| ElectronContainerDiff | Compares two IChemObject classes. | Class | org.openscience.cdk.tools.diff | CDK |
| ElementDiff | Compares two IElement classes. | Class | org.openscience.cdk.tools.diff | CDK |
| IDifference | Interface | org.openscience.cdk.tools.diff.tree | CDK | |
| IDifferenceList | IDifference between two Objects which contains one or more child IDifference objects. | Interface | org.openscience.cdk.tools.diff.tree | CDK |
| IntegerDifference | IDifference between two Integer. | Class | org.openscience.cdk.tools.diff.tree | CDK |
| IsotopeDiff | Compares two IIsotope classes. | Class | org.openscience.cdk.tools.diff | CDK |
| LonePairDiff | Compares two ILonePair classes. | Class | org.openscience.cdk.tools.diff | CDK |
| Point2dDifference | Difference between two boolean[]'s. | Class | org.openscience.cdk.tools.diff.tree | CDK |
| Point3dDifference | Difference between two boolean[]'s. | Class | org.openscience.cdk.tools.diff.tree | CDK |
| SingleElectronDiff | Compares two ISingleElectron classes. | Class | org.openscience.cdk.tools.diff | CDK |
| StringDifference | IDifference between two String. | Class | org.openscience.cdk.tools.diff.tree | CDK |