I am interesting in a presentation of a diffeomorphisms in terms of generators. Is it possible to obtain such presentation in some cases, depending on a genus of a surface or a type of diffeomorphism (i.e if it is periodic)?
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If your question is: can you present the homeotopy group in terms of generators and relations, the answer is "yes", following the work of Hatcher-Thurston, Wajnryb, and most recently M. Korkmaz, who gives a relatively civilized presentation. If you mean: given a homeomorphism, can you express its isotopy class in terms of the generators, I assume that the answer is yes, but it obviously depends on how the homeomorphism is given. For related work, see Brinkmann, Peter(1-UT) An implementation of the Bestvina-Handel algorithm for surface homeomorphisms. (English summary) Experiment. Math. 9 (2000), no. 2, 235–240.