{"id":19449374,"url":"https://github.com/insilichem/tangram","last_synced_at":"2025-04-25T03:31:52.070Z","repository":{"id":112797430,"uuid":"109422244","full_name":"insilichem/tangram","owner":"insilichem","description":":black_square_button::atom_symbol: A collection of molecular modelling tools for UCSF Chimera","archived":false,"fork":false,"pushed_at":"2019-03-26T16:41:42.000Z","size":701,"stargazers_count":16,"open_issues_count":5,"forks_count":3,"subscribers_count":5,"default_branch":"master","last_synced_at":"2023-10-20T20:24:08.323Z","etag":null,"topics":["bioinformatics","cheminformatics","graphical-interface","ucsf-chimera"],"latest_commit_sha":null,"homepage":"http://tangram-suite.readthedocs.io","language":"Shell","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/insilichem.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null}},"created_at":"2017-11-03T17:08:03.000Z","updated_at":"2023-02-06T01:52:31.000Z","dependencies_parsed_at":"2023-04-20T19:06:01.677Z","dependency_job_id":null,"html_url":"https://github.com/insilichem/tangram","commit_stats":null,"previous_names":[],"tags_count":8,"template":null,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insilichem%2Ftangram","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insilichem%2Ftangram/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insilichem%2Ftangram/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insilichem%2Ftangram/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/insilichem","download_url":"https://codeload.github.com/insilichem/tangram/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":223979762,"owners_count":17235460,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["bioinformatics","cheminformatics","graphical-interface","ucsf-chimera"],"created_at":"2024-11-10T16:32:11.903Z","updated_at":"2024-11-10T16:32:50.331Z","avatar_url":"https://github.com/insilichem.png","language":"Shell","funding_links":[],"categories":[],"sub_categories":[],"readme":"![image](docs/img/tangram.jpg)\n\nTangram Suite\n=============\n\n[![image](https://readthedocs.org/projects/tangram-suite/badge/?version=latest)](http://tangram-suite.readthedocs.io/en/latest/?badge=latest) [![image](https://img.shields.io/github/release/insilichem/tangram.svg)](https://github.com/insilichem/tangram/releases)\n\nIt\\'s composed of several independent graphical interfaces and commands\nfor UCSF Chimera. Each extension or *tan* has its own separate\nrepository, as detailed in the list below. The project name is (almost)\nalways prefixed with *tangram\\_* for easy identification.\n\nAs installing extensions in UCSF Chimera can be tricky, specially if\nexternal dependencies are required, in this repository we provide [Linux\nand MacOS installers](https://github.com/insilichem/tangram/releases) to\nhandle that for you. More details are provided below. The documentation\nwill be collected here, as well.\n\nTangram extensions\n------------------\n\nAfter the installation, a new menu will be available under *Tools*,\ncalled *InsiliChem*.\n\n-   **Calculation setup**\n\n    \u003e -   [MMSetup](https://github.com/insilichem/tangram_mmsetup):\n    \u003e     Setup MD calculations with OpenMM and ommprotocol \\[WIP\\]\n    \u003e -   [QMSetup](https://github.com/insilichem/tangram_qmsetup): QM\n    \u003e     and QM/MM calculations setup\n\n-   **Visualization**\n\n    \u003e -   [3D-SNFG](https://github.com/insilichem/tangram_snfg): Enable\n    \u003e     easy visualization of saccharydic residues\n    \u003e -   [BondOrder](https://github.com/insilichem/tangram_bondorder):\n    \u003e     Automatic bond order perception for UCSF Chimera \\[WIP\\]\n    \u003e -   [GAUDIView](https://github.com/insilichem/gaudiview):\n    \u003e     Lighweight visualization of results coming from docking,\n    \u003e     conformational search or multiobjective optimization\n    \u003e -   [TalaDraw](https://github.com/insilichem/tangram_taladraw):\n    \u003e     Build 3D structures out of two-dimensional sketches\n\n-   **Analysis**\n\n    \u003e -   [NCIPlotGUI](https://github.com/insilichem/tangram_nciplot):\n    \u003e     Straightforward interface to setup calculations for NCIPlot\n    \u003e     and visualize them\n    \u003e -   [NormalModes](https://github.com/insilichem/tangram_normalmodes):\n    \u003e     Perform Normal Modes Analysis and view them directly on-screen\n    \u003e -   [PLIPGUI](https://github.com/insilichem/tangram_plipgui):\n    \u003e     Depict protein-ligand interactions, as calculated with PLIP\n    \u003e -   [PoPMuSiCGUI](https://github.com/insilichem/tangram_popmusicgui):\n    \u003e     Depict and apply the predictions made by PoPMuSiC calculations\n    \u003e -   [PropKaGUI](https://github.com/insilichem/tangram_propkagui):\n    \u003e     Analyze and depict the expected pKa values of protein residues\n    \u003e     with PropKa 3.1\n    \u003e -   [SubAlign](https://github.com/insilichem/tangram_subalign):\n    \u003e     Align two, potentially different, molecules based on partial\n    \u003e     matches of substructures\n\n-   **Utilities \u0026 Patches**\n\n    \u003e -   [OrbiTraj](https://github.com/insilichem/tangram_orbitraj): A\n    \u003e     subtle modification to UCSF Chimera\\'s MD Movie extension to\n    \u003e     allow the visualization of volumetric data along a molecular\n    \u003e     trajectory\n    \u003e -   [ReVina](https://github.com/insilichem/tangram_vinarelaunch):\n    \u003e     Resubmit failed AutoDock Vina jobs without reconfiguring the\n    \u003e     GUI\n\nInstallation and usage\n----------------------\n\nCheck the [docs](http://tangram-suite.readthedocs.io/en/latest/)!\n\nHelp and support\n----------------\n\nFeel free to [submit an issue in this repository](https://github.com/insilichem/tangram/issues) if you have\nany problems with the installation process. However, if the issue is\nextension-specific, please use the Issues section of the corresponding\nrepository (links are provided in the list above).\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Finsilichem%2Ftangram","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Finsilichem%2Ftangram","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Finsilichem%2Ftangram/lists"}