{"id":262,"date":"2022-08-29T13:34:13","date_gmt":"2022-08-29T13:34:13","guid":{"rendered":"https:\/\/labs.icahn.mssm.edu\/yuanlab\/?page_id=262"},"modified":"2025-10-15T21:10:36","modified_gmt":"2025-10-15T21:10:36","slug":"giotto","status":"publish","type":"page","link":"https:\/\/labs.icahn.mssm.edu\/yuanlab\/giotto\/","title":{"rendered":"Giotto"},"content":{"rendered":"

Giotto is now Giotto Suite! It contains a suite of open-source software packages that underlies a fully modular and integrated spatial data analysis toolbox. At its core, Giotto Suite is centered around an innovative and technology-agnostic data framework embedded in the R software environment, which allows the representation and integration of virtually any type of spatial omics data at any spatial resolution. In addition, Giotto Suite provides both scalable and extensible end-to-end solutions for data analysis, integration, and visualization. Giotto Suite integrates molecular, morphology, spatial, and annotated feature information to create a responsive and flexible workflow for multi-scale, multi-omic data analyses.<\/p>\n

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Click here<\/a> to access the main Giotto Suite website.<\/p>\n

Click here<\/a> for information about the original (deprecated) version of Giotto.<\/p>\n

Giotto (Suite) is described in the following publications.<\/p>\n

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  1. Chen JG*<\/span><\/span>, Ch\u00e1vez-Fuentes JC*<\/span><\/span>, O’Brien M, Xu J, Ruiz EC, Wang W, Amin I, Sheridan JP, Shin SC, Hasyagar SV, Sarfraz I, Guckhool P, Sistig A, Jarzabek V, Yuan GC\u2020<\/span><\/span>, Dries R\u2020<\/span><\/span>. Giotto Suite: a multiscale and technology-agnostic spatial multiomics analysis ecosystem. Nat Methods. 2025 Oct;22(10):2052-2064.\u00a0[ paper<\/a> ]<\/li>\n
  2. Dries R*\u2020, Zhu Q*, Dong R, Eng CL, Li H, Liu K, Fu Y, Zhao T, Sarkar A, Bao F, George RE, Pierson N, Cai L, Yuan GC\u2020. Giotto: a toolbox for integrative analysis and visualization of spatial expression data. Genome Biol.<\/em> 2021 Mar 8;22(1):78. [ paper<\/a> ]<\/li>\n
  3. Del Rossi N*, Chen JG*, Yuan GC\u2020, Dries R\u2020. Analyzing Spatial Transcriptomics Data Using Giotto. Curr Protoc<\/em>. 2022 Apr;2(4):e405. doi: 10.1002\/cpz1.405. [ paper<\/a> ]<\/li>\n<\/ol>\n

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    Giotto is now Giotto Suite! It contains a suite of open-source software packages that underlies a fully modular and integrated spatial data analysis toolbox. At its core, Giotto Suite is centered around an innovative and technology-agnostic data framework embedded in the R software environment, which allows the representation and integration of virtually any type of […]<\/p>\n","protected":false},"author":443,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-262","page","type-page","status-publish","hentry"],"aioseo_notices":[],"_links":{"self":[{"href":"https:\/\/labs.icahn.mssm.edu\/yuanlab\/wp-json\/wp\/v2\/pages\/262","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/labs.icahn.mssm.edu\/yuanlab\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/labs.icahn.mssm.edu\/yuanlab\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/labs.icahn.mssm.edu\/yuanlab\/wp-json\/wp\/v2\/users\/443"}],"replies":[{"embeddable":true,"href":"https:\/\/labs.icahn.mssm.edu\/yuanlab\/wp-json\/wp\/v2\/comments?post=262"}],"version-history":[{"count":21,"href":"https:\/\/labs.icahn.mssm.edu\/yuanlab\/wp-json\/wp\/v2\/pages\/262\/revisions"}],"predecessor-version":[{"id":391,"href":"https:\/\/labs.icahn.mssm.edu\/yuanlab\/wp-json\/wp\/v2\/pages\/262\/revisions\/391"}],"wp:attachment":[{"href":"https:\/\/labs.icahn.mssm.edu\/yuanlab\/wp-json\/wp\/v2\/media?parent=262"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}