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Components for rendering sequence logos","author":{"name":"Henry Pratt"},"readme":"# LogosJ: Embeddable SVG Sequence Logos\n\nLogosJ is a Javascipt package for creating SVG sequence logos.\nLogosJ supports a wide range of biological use cases. This README provides a quick overview\nof LogosJ installation and usage. For detailed examples with code samples\nare available at our [companion site](http://logosj.wenglab.org/app/gallery) and documentation\nat [GitHub Pages](https://weng-lab.github.io/logosj-package/).\n\nLogosJ can be used with and without ReactJS. A companion web app makes it easy to share\nSVG logos and generate them in batches from the output of common tools such as the MEME Suite.\n\n## Using in your web application\nYou can add LogosJ to your project using NPM or Yarn:\n```sh\nyarn add logosj-react\n```\nor\n```sh\nnpm install logosj-react\n```\n\nIf you want to use LogosJ in a static web page, you can simply include the package with a\nstatic script tag, which will add LogosJ to the global namespace as `logosj`:\n\n```html\n<script src=\"https://bundle.logosj.wenglab.org/bundle.js\" type=\"text/javascript\">\n</script>\n```\n\n## Quick example: a DNA logo\n\nThe transcription factor CTCF binds a well-known consensus DNA sequence, rendered below with LogosJ:\n\n<img src=\"https://logosj.wenglab.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\" alt=\"CTCF logo\" width=\"50%\">\n\nIf you use ReactJS, the following code creates the CTCF consensus binding logo:\n\n```jsx\nimport { DNALogo } from 'logosj-react';\n\nconst CTCF_PPM = [\n  [0.09, 0.31, 0.08, 0.50], [0.18, 0.15, 0.45, 0.20], [0.30, 0.05, 0.49, 0.14],\n  [0.06, 0.87, 0.02, 0.03], [0.00, 0.98, 0.00, 0.02], [0.81, 0.01, 0.07, 0.09], \n  [0.04, 0.57, 0.36, 0.01], [0.11, 0.47, 0.05, 0.35], [0.93, 0.01, 0.03, 0.01],\n  [0.00, 0.00, 0.99, 0.01], [0.36, 0.00, 0.64, 0.00], [0.05, 0.01, 0.55, 0.37], \n  [0.03, 0.00, 0.97, 0.00], [0.06, 0.00, 0.85, 0.07], [0.11, 0.80, 0.00, 0.07],\n  [0.40, 0.01, 0.55, 0.01], [0.09, 0.53, 0.33, 0.04], [0.12, 0.35, 0.08, 0.43], \n  [0.44, 0.19, 0.29, 0.06]\n];\n\nexport const CTCFLogo = props => (\n    <DNALogo ppm={CTCF_PPM} />\n);\n```\n\nIf you don't use React, the following code embeds the DNA logo in a `div` element:\n\n```html\n<!doctype html>\n<html>\n  <body>\n    <script src=\"https://bundle.logosj.wenglab.org/bundle.js\" type=\"text/javascript\"></script>\n    <div id=\"logo\" style=\"width:500px\"></div>\n    <script type=\"text/javascript\">\n      const CTCF_PPM = [\n        [0.09, 0.31, 0.08, 0.50], [0.18, 0.15, 0.45, 0.20], [0.30, 0.05, 0.49, 0.14],\n        [0.06, 0.87, 0.02, 0.03], [0.00, 0.98, 0.00, 0.02], [0.81, 0.01, 0.07, 0.09], \n        [0.04, 0.57, 0.36, 0.01], [0.11, 0.47, 0.05, 0.35], [0.93, 0.01, 0.03, 0.01],\n        [0.00, 0.00, 0.99, 0.01], [0.36, 0.00, 0.64, 0.00], [0.05, 0.01, 0.55, 0.37], \n        [0.03, 0.00, 0.97, 0.00], [0.06, 0.00, 0.85, 0.07], [0.11, 0.80, 0.00, 0.07],\n        [0.40, 0.01, 0.55, 0.01], [0.09, 0.53, 0.33, 0.04], [0.12, 0.35, 0.08, 0.43], \n        [0.44, 0.19, 0.29, 0.06]\n      ];\n      logosj.embedDNALogo(document.getElementById(\"logo\"), { ppm: CTCF_PPM });\n    </script>\n  </body>\n</html>\n```\n","readmeFilename":"README.md","license":"MIT"}