{"id":18666756,"url":"https://github.com/bionode/bionode-fasta","last_synced_at":"2025-09-10T08:11:31.843Z","repository":{"id":18549937,"uuid":"21751361","full_name":"bionode/bionode-fasta","owner":"bionode","description":"Streamable FASTA 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align=\"center\"\u003e\n  \u003ca href=\"http://bionode.io\"\u003e\n    \u003cimg height=\"200\" width=\"200\" title=\"bionode\" alt=\"bionode logo\" src=\"https://rawgithub.com/bionode/bionode/master/docs/bionode-logo.min.svg\"/\u003e\n  \u003c/a\u003e\n  \u003cbr/\u003e\n  \u003ca href=\"http://bionode.io/\"\u003ebionode.io\u003c/a\u003e\n\u003c/p\u003e\n\n# bionode-fasta\n\u003e Streamable FASTA parser.\n\n[![NPM version][npm-image]][npm-url]\n[![Build Status][travis-image]][travis-url]\n[![Coveralls Status][coveralls-image]][coveralls-url]\n[![Dependency Status][depstat-image]][depstat-url]\n[![Gitter chat][gitter-image]][gitter-url]\n[![DOI][doi-image]][doi-url]\n\n\nInstall\n-------\n\nInstall ```bionode-fasta``` with [npm](//npmjs.org):\n\n```sh\n$ npm install bionode-fasta\n```\nTo use it as a command line tool, you can install it globally by adding ```-g``` .\n\nAlternatively, just include `bionode-fasta.min.js` via a `\u003cscript/\u003e` in your page.\n\nUsage\n-----\n\nIf you are using ```bionode-fasta``` with Node.js, you can require the module:\n\n```js\nvar fasta = require('bionode-fasta')\n\nfasta('./input.fasta').pipe(process.stdout) // Returns Buffers\nfasta.obj('./input.fasta').on('data', console.log) // Returns Objects\nfs.createReadStream('./input.fasta').pipe(fasta()) // Parses streamed content\nfs.createReadStream('./fasta-list.txt')\n.pipe(split())\n.pipe(fasta({filenameMode: true})) // Parses files from filename Strings\n\n=\u003e   { id: 'sequence1',\n       seq: 'ATGCACGTCACGTCAGTACTCGTCAGTAC' }\n     { id: 'sequence2',\n       seq: 'CAGTCCTACTGCATGCATGCATGCATGCATCGATGCATGTCGACTGCATGCATGC' }\n\nfasta.obj({includePath: true}, './input.fasta').on('data', console.log) // Returns Objects\n=\u003e   { id: 'sequence1',\n       seq: 'ATGCACGTCACGTCAGTACTCGTCAGTAC'\n       path: './input.fasta' }\n```\n\nPlease read the [documentation](http://rawgit.com/bionode/bionode-fasta/master/docs/bionode-fasta.html) for the methods exposed by bionode-fasta.\n\n### Command line example\n```sh\n$ bionode-fasta input.fasta output.json\n```\n\nContributing\n------------\n\nTo contribute, clone this repo locally and commit your code on a separate branch.\n\nPlease write unit tests for your code, and check that everything works by running the following before opening a pull-request:\n\n```sh\n$ npm test\n```\n\nPlease also check for code coverage:\n\n```sh\n$ npm run coverage\n```\n\nTo rebuild and minify the module for the browser:\n\n```sh\n$ npm run build-browser\n```\n\nTo rebuild the documentation using the comments in the code:\n\n```sh\n$ npm run build-docs\n```\nCheck the [issues](http://github.com/bionode/bionode-fasta/issues) for ways to contribute.\n\nContacts\n--------\nBruno Vieira \u003c[mail@bmpvieira.com](mailto:mail@bmpvieira.com)\u003e [@bmpvieira](//twitter.com/bmpvieira)  \n\nLicense\n--------\n\nbionode-fasta is licensed under the [MIT](https://raw.github.com/bionode/bionode-fasta/master/LICENSE) license.  \nCheck [ChooseALicense.com](http://choosealicense.com/licenses/mit) for details.\n\n[npm-url]: http://npmjs.org/package/bionode-fasta\n[npm-image]: http://img.shields.io/npm/v/bionode-fasta.svg?style=flat\n[travis-url]: http:////travis-ci.org/bionode/bionode-fasta\n[travis-image]: http://img.shields.io/travis/bionode/bionode-fasta.svg?style=flat\n[coveralls-url]: http:////coveralls.io/r/bionode/bionode-fasta\n[coveralls-image]: http://img.shields.io/coveralls/bionode/bionode-fasta.svg?style=flat\n[depstat-url]: http://david-dm.org/bionode/bionode-fasta\n[depstat-image]: http://img.shields.io/david/bionode/bionode-fasta.svg?style=flat\n[gitter-image]: http://img.shields.io/badge/gitter-bionode/bionode--fasta-brightgreen.svg?style=flat\n[gitter-url]: https://gitter.im/bionode/bionode-fasta\n[doi-url]: https://doi.org/10.5281/zenodo.11307\n[doi-image]: http://img.shields.io/badge/doi-10.5281/zenodo.11307-blue.svg?style=flat\n\n[![Bitdeli Badge](http://d2weczhvl823v0.cloudfront.net/bionode/bionode-fasta/trend.png)](https://bitdeli.com/free \"Bitdeli Badge\")\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbionode%2Fbionode-fasta","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fbionode%2Fbionode-fasta","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbionode%2Fbionode-fasta/lists"}