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DISTRIBUTION OF THIS DOCUMENT DOES NOT CREATE AN\nATTORNEY-CLIENT RELATIONSHIP. CREATIVE COMMONS PROVIDES THIS INFORMATION\nON AN \"AS-IS\" BASIS. 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These owners may contribute to the Commons to promote the\nideal of a free culture and the further production of creative, cultural\nand scientific works, or to gain reputation or greater distribution for\ntheir Work in part through the use and efforts of others.\n\nFor these and/or other purposes and motivations, and without any\nexpectation of additional consideration or compensation, the person\nassociating CC0 with a Work (the \"Affirmer\"), to the extent that he or\nshe is an owner of Copyright and Related Rights in the Work, voluntarily\nelects to apply CC0 to the Work and publicly distribute the Work under\nits terms, with knowledge of his or her Copyright and Related Rights in\nthe Work and the meaning and intended legal effect of CC0 on those\nrights.\n\n1. Copyright and Related Rights. A Work made available under CC0 may be\nprotected by copyright and related or neighboring rights (\"Copyright and\nRelated Rights\"). Copyright and Related Rights include, but are not\nlimited to, the following:\n\ni. the right to reproduce, adapt, distribute, perform, display,\ncommunicate, and translate a Work;\n\nii. moral rights retained by the original author(s) and/or performer(s);\n\niii. publicity and privacy rights pertaining to a person's image or\nlikeness depicted in a Work;\n\niv. rights protecting against unfair competition in regards to a Work,\nsubject to the limitations in paragraph 4(a), below;\n\nv. rights protecting the extraction, dissemination, use and reuse of\ndata in a Work;\n\nvi. database rights (such as those arising under Directive 96/9/EC of\nthe European Parliament and of the Council of 11 March 1996 on the legal\nprotection of databases, and under any national implementation thereof,\nincluding any amended or successor version of such directive); and\n\nvii. other similar, equivalent or corresponding rights throughout the\nworld based on applicable law or treaty, and any national\nimplementations thereof.\n\n2. Waiver. To the greatest extent permitted by, but not in contravention\nof, applicable law, Affirmer hereby overtly, fully, permanently,\nirrevocably and unconditionally waives, abandons, and surrenders all of\nAffirmer's Copyright and Related Rights and associated claims and causes\nof action, whether now known or unknown (including existing as well as\nfuture claims and causes of action), in the Work (i) in all territories\nworldwide, (ii) for the maximum duration provided by applicable law or\ntreaty (including future time extensions), (iii) in any current or\nfuture medium and for any number of copies, and (iv) for any purpose\nwhatsoever, including without limitation commercial, advertising or\npromotional purposes (the \"Waiver\"). 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DISTRIBUTION OF THIS DOCUMENT DOES NOT CREATE AN\nATTORNEY-CLIENT RELATIONSHIP. CREATIVE COMMONS PROVIDES THIS INFORMATION\nON AN \"AS-IS\" BASIS. CREATIVE COMMONS MAKES NO WARRANTIES REGARDING THE\nUSE OF THIS DOCUMENT OR THE INFORMATION OR WORKS PROVIDED HEREUNDER, AND\nDISCLAIMS LIABILITY FOR DAMAGES RESULTING FROM THE USE OF THIS DOCUMENT\nOR THE INFORMATION OR WORKS PROVIDED HEREUNDER.\n\nStatement of Purpose\n\nThe laws of most jurisdictions throughout the world automatically confer\nexclusive Copyright and Related Rights (defined below) upon the creator\nand subsequent owner(s) (each and all, an \"owner\") of an original work\nof authorship and/or a database (each, a \"Work\").\n\nCertain owners wish to permanently relinquish those rights to a Work for\nthe purpose of contributing to a commons of creative, cultural and\nscientific works (\"Commons\") that the public can reliably and without\nfear of later claims of infringement build upon, modify, incorporate in\nother works, reuse and redistribute as freely as possible in any form\nwhatsoever and for any purposes, including without limitation commercial\npurposes. These owners may contribute to the Commons to promote the\nideal of a free culture and the further production of creative, cultural\nand scientific works, or to gain reputation or greater distribution for\ntheir Work in part through the use and efforts of others.\n\nFor these and/or other purposes and motivations, and without any\nexpectation of additional consideration or compensation, the person\nassociating CC0 with a Work (the \"Affirmer\"), to the extent that he or\nshe is an owner of Copyright and Related Rights in the Work, voluntarily\nelects to apply CC0 to the Work and publicly distribute the Work under\nits terms, with knowledge of his or her Copyright and Related Rights in\nthe Work and the meaning and intended legal effect of CC0 on those\nrights.\n\n1. Copyright and Related Rights. A Work made available under CC0 may be\nprotected by copyright and related or neighboring rights (\"Copyright and\nRelated Rights\"). Copyright and Related Rights include, but are not\nlimited to, the following:\n\ni. the right to reproduce, adapt, distribute, perform, display,\ncommunicate, and translate a Work;\n\nii. moral rights retained by the original author(s) and/or performer(s);\n\niii. publicity and privacy rights pertaining to a person's image or\nlikeness depicted in a Work;\n\niv. rights protecting against unfair competition in regards to a Work,\nsubject to the limitations in paragraph 4(a), below;\n\nv. rights protecting the extraction, dissemination, use and reuse of\ndata in a Work;\n\nvi. database rights (such as those arising under Directive 96/9/EC of\nthe European Parliament and of the Council of 11 March 1996 on the legal\nprotection of databases, and under any national implementation thereof,\nincluding any amended or successor version of such directive); and\n\nvii. other similar, equivalent or corresponding rights throughout the\nworld based on applicable law or treaty, and any national\nimplementations thereof.\n\n2. Waiver. To the greatest extent permitted by, but not in contravention\nof, applicable law, Affirmer hereby overtly, fully, permanently,\nirrevocably and unconditionally waives, abandons, and surrenders all of\nAffirmer's Copyright and Related Rights and associated claims and causes\nof action, whether now known or unknown (including existing as well as\nfuture claims and causes of action), in the Work (i) in all territories\nworldwide, (ii) for the maximum duration provided by applicable law or\ntreaty (including future time extensions), (iii) in any current or\nfuture medium and for any number of copies, and (iv) for any purpose\nwhatsoever, including without limitation commercial, advertising or\npromotional purposes (the \"Waiver\"). Affirmer makes the Waiver for the\nbenefit of each member of the public at large and to the detriment of\nAffirmer's heirs and successors, fully intending that such Waiver shall\nnot be subject to revocation, rescission, cancellation, termination, or\nany other legal or equitable action to disrupt the quiet enjoyment of\nthe Work by the public as contemplated by Affirmer's express Statement\nof Purpose.\n\n3. Public License Fallback. Should any part of the Waiver for any reason\nbe judged legally invalid or ineffective under applicable law, then the\nWaiver shall be preserved to the maximum extent permitted taking into\naccount Affirmer's express Statement of Purpose. In addition, to the\nextent the Waiver is so judged Affirmer hereby grants to each affected\nperson a royalty-free, non transferable, non sublicensable, non\nexclusive, irrevocable and unconditional license to exercise Affirmer's\nCopyright and Related Rights in the Work (i) in all territories\nworldwide, (ii) for the maximum duration provided by applicable law or\ntreaty (including future time extensions), (iii) in any current or\nfuture medium and for any number of copies, and (iv) for any purpose\nwhatsoever, including without limitation commercial, advertising or\npromotional purposes (the \"License\"). The License shall be deemed\neffective as of the date CC0 was applied by Affirmer to the Work. 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DISTRIBUTION OF THIS DOCUMENT DOES NOT CREATE AN\nATTORNEY-CLIENT RELATIONSHIP. CREATIVE COMMONS PROVIDES THIS INFORMATION\nON AN \"AS-IS\" BASIS. CREATIVE COMMONS MAKES NO WARRANTIES REGARDING THE\nUSE OF THIS DOCUMENT OR THE INFORMATION OR WORKS PROVIDED HEREUNDER, AND\nDISCLAIMS LIABILITY FOR DAMAGES RESULTING FROM THE USE OF THIS DOCUMENT\nOR THE INFORMATION OR WORKS PROVIDED HEREUNDER.\n\nStatement of Purpose\n\nThe laws of most jurisdictions throughout the world automatically confer\nexclusive Copyright and Related Rights (defined below) upon the creator\nand subsequent owner(s) (each and all, an \"owner\") of an original work\nof authorship and/or a database (each, a \"Work\").\n\nCertain owners wish to permanently relinquish those rights to a Work for\nthe purpose of contributing to a commons of creative, cultural and\nscientific works (\"Commons\") that the public can reliably and without\nfear of later claims of infringement build upon, modify, incorporate in\nother works, reuse and redistribute as freely as possible in any form\nwhatsoever and for any purposes, including without limitation commercial\npurposes. These owners may contribute to the Commons to promote the\nideal of a free culture and the further production of creative, cultural\nand scientific works, or to gain reputation or greater distribution for\ntheir Work in part through the use and efforts of others.\n\nFor these and/or other purposes and motivations, and without any\nexpectation of additional consideration or compensation, the person\nassociating CC0 with a Work (the \"Affirmer\"), to the extent that he or\nshe is an owner of Copyright and Related Rights in the Work, voluntarily\nelects to apply CC0 to the Work and publicly distribute the Work under\nits terms, with knowledge of his or her Copyright and Related Rights in\nthe Work and the meaning and intended legal effect of CC0 on those\nrights.\n\n1. Copyright and Related Rights. A Work made available under CC0 may be\nprotected by copyright and related or neighboring rights (\"Copyright and\nRelated Rights\"). Copyright and Related Rights include, but are not\nlimited to, the following:\n\ni. the right to reproduce, adapt, distribute, perform, display,\ncommunicate, and translate a Work;\n\nii. moral rights retained by the original author(s) and/or performer(s);\n\niii. publicity and privacy rights pertaining to a person's image or\nlikeness depicted in a Work;\n\niv. rights protecting against unfair competition in regards to a Work,\nsubject to the limitations in paragraph 4(a), below;\n\nv. rights protecting the extraction, dissemination, use and reuse of\ndata in a Work;\n\nvi. database rights (such as those arising under Directive 96/9/EC of\nthe European Parliament and of the Council of 11 March 1996 on the legal\nprotection of databases, and under any national implementation thereof,\nincluding any amended or successor version of such directive); and\n\nvii. other similar, equivalent or corresponding rights throughout the\nworld based on applicable law or treaty, and any national\nimplementations thereof.\n\n2. Waiver. To the greatest extent permitted by, but not in contravention\nof, applicable law, Affirmer hereby overtly, fully, permanently,\nirrevocably and unconditionally waives, abandons, and surrenders all of\nAffirmer's Copyright and Related Rights and associated claims and causes\nof action, whether now known or unknown (including existing as well as\nfuture claims and causes of action), in the Work (i) in all territories\nworldwide, (ii) for the maximum duration provided by applicable law or\ntreaty (including future time extensions), (iii) in any current or\nfuture medium and for any number of copies, and (iv) for any purpose\nwhatsoever, including without limitation commercial, advertising or\npromotional purposes (the \"Waiver\"). Affirmer makes the Waiver for the\nbenefit of each member of the public at large and to the detriment of\nAffirmer's heirs and successors, fully intending that such Waiver shall\nnot be subject to revocation, rescission, cancellation, termination, or\nany other legal or equitable action to disrupt the quiet enjoyment of\nthe Work by the public as contemplated by Affirmer's express Statement\nof Purpose.\n\n3. Public License Fallback. Should any part of the Waiver for any reason\nbe judged legally invalid or ineffective under applicable law, then the\nWaiver shall be preserved to the maximum extent permitted taking into\naccount Affirmer's express Statement of Purpose. In addition, to the\nextent the Waiver is so judged Affirmer hereby grants to each affected\nperson a royalty-free, non transferable, non sublicensable, non\nexclusive, irrevocable and unconditional license to exercise Affirmer's\nCopyright and Related Rights in the Work (i) in all territories\nworldwide, (ii) for the maximum duration provided by applicable law or\ntreaty (including future time extensions), (iii) in any current or\nfuture medium and for any number of copies, and (iv) for any purpose\nwhatsoever, including without limitation commercial, advertising or\npromotional purposes (the \"License\"). The License shall be deemed\neffective as of the date CC0 was applied by Affirmer to the Work. Should\nany part of the License for any reason be judged legally invalid or\nineffective under applicable law, such partial invalidity or\nineffectiveness shall not invalidate the remainder of the License, and\nin such case Affirmer hereby affirms that he or she will not (i)\nexercise any of his or her remaining Copyright and Related Rights in the\nWork or (ii) assert any associated claims and causes of action with\nrespect to the Work, in either case contrary to Affirmer's express\nStatement of Purpose.\n\n4. Limitations and Disclaimers.\n\na. No trademark or patent rights held by Affirmer are waived, abandoned,\nsurrendered, licensed or otherwise affected by this document.\n\nb. 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DISTRIBUTION OF THIS DOCUMENT DOES NOT CREATE AN\nATTORNEY-CLIENT RELATIONSHIP. CREATIVE COMMONS PROVIDES THIS INFORMATION\nON AN \"AS-IS\" BASIS. CREATIVE COMMONS MAKES NO WARRANTIES REGARDING THE\nUSE OF THIS DOCUMENT OR THE INFORMATION OR WORKS PROVIDED HEREUNDER, AND\nDISCLAIMS LIABILITY FOR DAMAGES RESULTING FROM THE USE OF THIS DOCUMENT\nOR THE INFORMATION OR WORKS PROVIDED HEREUNDER.\n\nStatement of Purpose\n\nThe laws of most jurisdictions throughout the world automatically confer\nexclusive Copyright and Related Rights (defined below) upon the creator\nand subsequent owner(s) (each and all, an \"owner\") of an original work\nof authorship and/or a database (each, a \"Work\").\n\nCertain owners wish to permanently relinquish those rights to a Work for\nthe purpose of contributing to a commons of creative, cultural and\nscientific works (\"Commons\") that the public can reliably and without\nfear of later claims of infringement build upon, modify, incorporate in\nother works, reuse and redistribute as freely as possible in any form\nwhatsoever and for any purposes, including without limitation commercial\npurposes. 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Copyright and Related Rights include, but are not\nlimited to, the following:\n\ni. the right to reproduce, adapt, distribute, perform, display,\ncommunicate, and translate a Work;\n\nii. moral rights retained by the original author(s) and/or performer(s);\n\niii. publicity and privacy rights pertaining to a person's image or\nlikeness depicted in a Work;\n\niv. rights protecting against unfair competition in regards to a Work,\nsubject to the limitations in paragraph 4(a), below;\n\nv. rights protecting the extraction, dissemination, use and reuse of\ndata in a Work;\n\nvi. database rights (such as those arising under Directive 96/9/EC of\nthe European Parliament and of the Council of 11 March 1996 on the legal\nprotection of databases, and under any national implementation thereof,\nincluding any amended or successor version of such directive); and\n\nvii. other similar, equivalent or corresponding rights throughout the\nworld based on applicable law or treaty, and any national\nimplementations thereof.\n\n2. Waiver. To the greatest extent permitted by, but not in contravention\nof, applicable law, Affirmer hereby overtly, fully, permanently,\nirrevocably and unconditionally waives, abandons, and surrenders all of\nAffirmer's Copyright and Related Rights and associated claims and causes\nof action, whether now known or unknown (including existing as well as\nfuture claims and causes of action), in the Work (i) in all territories\nworldwide, (ii) for the maximum duration provided by applicable law or\ntreaty (including future time extensions), (iii) in any current or\nfuture medium and for any number of copies, and (iv) for any purpose\nwhatsoever, including without limitation commercial, advertising or\npromotional purposes (the \"Waiver\"). Affirmer makes the Waiver for the\nbenefit of each member of the public at large and to the detriment of\nAffirmer's heirs and successors, fully intending that such Waiver shall\nnot be subject to revocation, rescission, cancellation, termination, or\nany other legal or equitable action to disrupt the quiet enjoyment of\nthe Work by the public as contemplated by Affirmer's express Statement\nof Purpose.\n\n3. Public License Fallback. Should any part of the Waiver for any reason\nbe judged legally invalid or ineffective under applicable law, then the\nWaiver shall be preserved to the maximum extent permitted taking into\naccount Affirmer's express Statement of Purpose. In addition, to the\nextent the Waiver is so judged Affirmer hereby grants to each affected\nperson a royalty-free, non transferable, non sublicensable, non\nexclusive, irrevocable and unconditional license to exercise Affirmer's\nCopyright and Related Rights in the Work (i) in all territories\nworldwide, (ii) for the maximum duration provided by applicable law or\ntreaty (including future time extensions), (iii) in any current or\nfuture medium and for any number of copies, and (iv) for any purpose\nwhatsoever, including without limitation commercial, advertising or\npromotional purposes (the \"License\"). The License shall be deemed\neffective as of the date CC0 was applied by Affirmer to the Work. 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Lorenzi","email":"claudio.lorenzi@gmail.com"},{"name":"Rich Wandell","email":"richwandell@gmail.com"},{"name":"Kai Hidajat","email":"kai.hidajat@gmail.com"},{"name":"Stanton Martin","email":"martins@ornl.gov"}],"maintainers":[{"name":"eweitz","email":"eric.m.weitz@gmail.com"}],"readme":"# ideogram\n[![Tests](https://github.com/eweitz/ideogram/actions/workflows/ci.yml/badge.svg)](https://github.com/eweitz/ideogram/actions/workflows/ci.yml)\n[![Coverage status](https://coveralls.io/repos/github/eweitz/ideogram/badge.svg?branch=master)](https://coveralls.io/github/eweitz/ideogram?branch=master)\n\n[Ideogram.js](https://eweitz.github.io/ideogram/) is a JavaScript library for [chromosome visualization](https://speakerdeck.com/eweitz/designing-genome-visualizations-with-ideogramjs).\n\nIdeogram supports drawing and animating genome-wide datasets for [human](https://eweitz.github.io/ideogram/human), [mouse](https://eweitz.github.io/ideogram/mouse), and [many other eukaryotes](https://eweitz.github.io/ideogram/eukaryotes).  The [Ideogram API](https://github.com/eweitz/ideogram/blob/master/api.md) for annotations supports [histograms](https://eweitz.github.io/ideogram/annotations-histogram), [heatmaps](https://eweitz.github.io/ideogram/annotations-heatmap), [overlays](https://eweitz.github.io/ideogram/annotations-overlaid), and points of arbitrary shape and color layered in [tracks](https://eweitz.github.io/ideogram/annotations-tracks). The [Ideogram API](https://github.com/eweitz/ideogram/blob/master/api.md) also supports [spanning](https://eweitz.github.io/ideogram/annotations-span) annotations alone, or with [heatmaps and histograms](https://eweitz.github.io/ideogram/annotations-span-heatmap-histogram). Ideogram can depict haploid, [diploid](https://eweitz.github.io/ideogram/ploidy-basic) or higher ploidy genomes (e.g. plants), as well as aneuploidy, [genetic recombination](https://eweitz.github.io/ideogram/ploidy-recombination), and [homologous features](https://eweitz.github.io/ideogram/homology-basic) between chromosomes.\n\nIdeogram can be embedded as a [reusable component](https://github.com/eweitz/ideogram#usage) in any web page or application, and leverages D3.js and SVG to achieve fast, crisp client-side rendering. You can also integrate Ideogram with JavaScript frameworks like [Angular](https://github.com/eweitz/ideogram/tree/master/examples/angular), [React](https://github.com/eweitz/ideogram/tree/master/examples/react), and [Vue](https://github.com/eweitz/ideogram/tree/master/examples/vue), as well as data science platforms like [R](https://github.com/eweitz/ideogram/tree/master/examples/r) and [Jupyter Notebook](https://github.com/eweitz/ideogram/tree/master/examples/jupyter).\n\n[![All human genes](https://raw.githubusercontent.com/eweitz/ideogram/master/examples/vanilla/ideogram_histogram_all_human_genes.png)](https://eweitz.github.io/ideogram/annotations_histogram.html)\n\nCheck out [live examples](https://eweitz.github.io/ideogram/), get [up and running](#installation) with your own deployment, skim [basic usage](#usage), or dive into the [full API](api.md)!\n\nA [broader overview](https://speakerdeck.com/eweitz/ideogramjs-chromosome-visualization-with-javascript) is also available.  It discusses Ideogram's chromosome biology, technical architecture, and more.\n\n# Installation\n\nTo link directly to the latest release, copy this snippet:\n```\n<script src=\"https://cdn.jsdelivr.net/npm/ideogram@1.53.0/dist/js/ideogram.min.js\"></script>\n```\n\nYou can also easily use the library locally:\n```\n$ cd <your local web server document root>\n$ git clone https://github.com/eweitz/ideogram.git\n```\n\nThen go to [http://localhost/ideogram/examples/](http://localhost/ideogram/examples/).\n\nOr, if you use npm:\n```\nnpm install ideogram\n```\n\nYou can then [import](https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Statements/import) Ideogram into an application like so:\n```\nimport Ideogram from 'ideogram';\n```\n\n\n# Usage\n```html\n<head>\n  <script src=\"https://cdn.jsdelivr.net/npm/ideogram@1.53.0/dist/js/ideogram.min.js\"></script>\n</head>\n<body>\n<script>\n  var ideogram = new Ideogram({\n    organism: 'human',\n    annotations: [{\n      name: 'BRCA1',\n      chr: '17',\n      start: 43044294,\n      stop: 43125482\n    }]\n  });\n</script>\n</body>\n```\n\nMany more usage examples are available at https://eweitz.github.io/ideogram/.\n\nYou can also find examples of integrating Ideogram with JavaScript frameworks like [Angular](https://github.com/eweitz/ideogram/tree/master/examples/angular), [React](https://github.com/eweitz/ideogram/tree/master/examples/react), and [Vue](https://github.com/eweitz/ideogram/tree/master/examples/vue), as well as data science platforms like [R](https://github.com/eweitz/ideogram/tree/master/examples/r) and [Jupyter Notebook](https://github.com/eweitz/ideogram/tree/master/examples/jupyter).\n\n\n# API\n\nSee the [Ideogram API reference](api.md) for detailed documentation on configuration options and methods.\n","readmeFilename":"README.md","users":{"eweitz":true}}