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We give a complete classification of (co)torsion pairs in finite $2$-Calabi-Yau triangulated categories with maximal rigid objects which are not cluster tilting. These finite $2$-Calabi-Yau triangulated categories are divided into two main classes: one denoted by $\A_{n,t}$ called of type $A$, and the other denoted by $D_{n,t}$ called of type $D$. By using the geometric model of cluster categories of type $A, $ or type $D$, we give a geometric description of (co)torsion pairs in $\A_{n,t}$ or $D_{n,t}$ respectively, via defining the periodic Ptolemy diagrams. This allows to count the number of (co)torsion pairs in these categories. Finally, we determine the hearts of (co)torsion pairs in all finite $2$-Calabi-Yau triangulated categories with maximal rigid objects which are not cluster tilting via quivers and relations.

Extriangulated categories were introduced by Nakaoka and Palu by extracting the similarities between exact categories and triangulated categories. A notion of mutation of subcategories in an extriangulated category is defined in this article. Let $\cal A$ be an extension closed subcategory of an extriangulated category $\C$. Then the quotient category $\cal M:=\cal A/\X$ carries naturally a triangulated structure whenever $(\cal A,\cal A)$ forms an $\X$-mutation pair. This result unifies many previous constructions of triangulated quotient categories, and using it gives a classification of thick triangulated subcategories of pretriangulated category $\C/\X$, where $\X$ is functorially finite in $\C$. When $\C$ has Auslander-Reiten translation $\tau$, we prove that for a functorially finite subcategory $\X$ of $\C$ containing projectives and injectives, $\C/\X$ is a triangulated category if and only if $(\C,\C)$ is $\X-$mutation, and if and only if $\tau \underline{\X}=\overline{\X}.$ This generalizes a result by J{\o}rgensen who proved the equivalence between the first and the third conditions for triangulated categories. Furthermore, we show that for such a subcategory $\X$ of the extriangulated category $\C$, $\C$ admits a new extriangulated structure such that $\C$ is a Frobenius extriangulated category. Applications to exact categories and triangulated categories are given. From the applications we present examples that extriangulated categories are neither exact categories nor triangulated categories.\

Nakaoka and Palu introduced the notion of extriangulated categories by extracting the similarities between exact categories and triangulated categories. In this paper, we study cotorsion pairs in a Frobenius extriangulated category $\C$. Especially, for a $2$-Calabi-Yau extriangulated category $\C$ with a cluster structure, we describe the cluster substructure in the cotorsion pairs. For rooted cluster algebras arising from $\C$ with cluster tilting objects, we give a one-to-one correspondence between cotorsion pairs in $\C$ and certain pairs of their rooted cluster subalgebras which we call complete pairs. Finally, we explain this correspondence by an example relating to a Grassmannian cluster algebra.

We study rooted cluster algebras and rooted cluster mor-phisms which were introduced in [1]recently and cluster struc-tures in 2-Calabi–Yau triangulated categories. An example of rooted cluster morphism which is not ideal is given, this clar-ifyinga doubt in [1]. We introduce the notion of freezing of a seed and show that an injective rooted cluster morphism always arises from a freezing and a subseed. Moreover, it is a section if and only if it arises from a subseed. This answers the Problem 7.7 in [1]. We prove that an inducible rooted clus-ter morphism is ideal if and only if it can be decomposed as a surjective rooted cluster morphism and an injective rooted cluster morphism. For rooted cluster algebras arising from a 2-Calabi–Yau triangulated category Cwith cluster tilting ob-jects, we give an one-to-one correspondence between certain pairs of their rooted cluster subalgebras which we call com-plete pairs (see Definition2.27) and cotorsion pairs in C.

For a Calabi-Yau triangulated category $\mathcal{C}$ of Calabi-Yau dimension $d$ with a $d-$cluster tilting subcategory $\mathcal{T}$, the decomposition of $\mathcal{C}$ is determined by the decomposition of $\mathcal{T}$ satisfying "vanishing condition" of negative extension groups, namely, $\mathcal{C}=\oplus_{i\in I}\mathcal{C}_i$, where $\mathcal{C}_i, i\in I$ are triangulated subcategories, if and only if $\mathcal{T}=\oplus_{i\in I}\mathcal{T}_i,$ where $\mathcal{T}_i, i\in I$ are subcategories with $\mbox{Hom} _{\mathcal{C}}(\mathcal{T} _i[t],\mathcal{T} _j)=0, \forall 1\leq t\leq d-2$ and $i\not= j.$ This induces that for any two cluster tilting objects $T, T'$ in a $2-$Calabi-Yau triangulated category $\mathcal{C}$, the Gabriel quivers of endomorphism algebra End$_{\mathcal{C}}T$ of $T$ is connected if and only if so is End$_{\mathcal{C}}T'$. As an application, we prove that indecomposable $2-$Calabi-Yau triangulated categories with cluster tilting objects have no non-trivial t-structures and no non-trivial co-t-structures. This allows us to give a classification of torsion pairs in those triangulated categories, and to determine further the hearts of torsion pairs in the sense of Nakaoka, which are equivalent to the module categories over the endomorphism algebras of the cores of the torsion pairs.