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There are a number of ways and it depends what you want to know (and already know) about the unknown compound. If it is an acid or a base, you can do a titration. If it is colored, you can measured the absorption spectrum by UV/Vis spectroscopy. If you have a good idea what the unknown compound could be (or a few options anyway), there may be a specific test for those particular compounds.

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Q: What is the best method for analyzing an unknown compound in aqueous form?
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