Actually the current version automatically converts one type of tone sandhi : if you have a case like "bu4 yao4" (不要), the result will be "bu2 yao4". The other tone sandhi like two times third tone is unchanged, for example "ni3 hao3" (你好).
Does the pinyin conversion take tone sandhi into account?
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Comments for OO Pinyin Guide
Actually the current version automatically converts one type of tone sandhi : if you have a case like "bu4 yao4" (不要), the result will be "bu2 yao4".
The other tone sandhi like two times third tone is unchanged, for example "ni3 hao3" (你好).