{
    "info": {
        "author": "Luca Cappelletti",
        "author_email": "cappelletti.luca94@gmail.com",
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        "classifiers": [
            "Development Status :: 3 - Alpha",
            "License :: OSI Approved :: MIT License",
            "Programming Language :: Python :: 3"
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        "description": "fasta_one_hot_encoder\n=========================================================================================\n|travis| |sonar_quality| |sonar_maintainability| |codacy| |code_climate_maintainability| |pip| |downloads|\n\nSimple python to lazily one-hot encode fasta files using multiple processes, either single bases or considering arbitrary kmers.\n\nHow do I install this package?\n----------------------------------------------\nAs usual, just download it using pip:\n\n.. code:: shell\n\n    pip install fasta_one_hot_encoder\n\nTests Coverage\n----------------------------------------------\nSince some software handling coverages sometime get slightly different results, here's three of them:\n\n|coveralls| |sonar_coverage| |code_climate_coverage|\n\nExamples\n---------------\n\nBases\n~~~~~~~~~~~~~~~~~~\n|bases|\n\nOne-hot encode to bases.\n\n.. code:: python\n\n    from fasta_one_hot_encoder import FastaOneHotEncoder\n\n    encoder = FastaOneHotEncoder(\n        nucleotides = \"acgt\",\n        lower = True,\n        sparse = False,\n        handle_unknown=\"ignore\"\n    )\n    path = \"test_data/my_test_fasta.fa\"\n    encoder.transform_to_df(path, verbose=True).to_csv(\n        \"my_result.csv\"\n    )\n\nObtained results should look like:\n\n+---+---+---+---+---+\n|   | a | c | g | t |\n+===+===+===+===+===+\n| 0 | 0 | 0 | 1 | 0 |\n+---+---+---+---+---+\n| 1 | 0 | 1 | 0 | 0 |\n+---+---+---+---+---+\n| 2 | 0 | 1 | 0 | 0 |\n+---+---+---+---+---+\n\nKmers\n~~~~~~~~~~~~~~~~~~\n|kmers|\n\nOne-hot encode to kmers of given length.\n\n.. code:: python\n\n    from fasta_one_hot_encoder import FastaOneHotEncoder\n\n    encoder = FastaOneHotEncoder(\n        nucleotides = \"acgt\",\n        kmers_length=2,\n        lower = True,\n        sparse = False,\n        handle_unknown=\"ignore\"\n    )\n    path = \"test_data/my_test_fasta.fa\"\n    encoder.transform_to_df(path, verbose=True).to_csv(\n        \"my_result.csv\"\n    )\n\nObtained results should look like:\n\n+---+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+\n|   | aa | ac | ag | at | ca | cc | cg | ct | ga | gc | gg | gt | ta | tc | tg | tt |\n+===+====+====+====+====+====+====+====+====+====+====+====+====+====+====+====+====+\n| 0 | 0  | 0  | 0  | 0  | 0  | 0  | 0  | 0  | 0  | 1  | 0  | 0  | 0  | 0  | 0  | 0  |\n+---+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+\n| 1 | 0  | 0  | 0  | 0  | 0  | 1  | 0  | 0  | 0  | 0  | 0  | 0  | 0  | 0  | 0  | 0  |\n+---+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+----+\n\n.. |bases| image:: https://github.com/LucaCappelletti94/fasta_one_hot_encoder/blob/master/bases.png?raw=true\n   :alt: Bases\n\n.. |kmers| image:: https://github.com/LucaCappelletti94/fasta_one_hot_encoder/raw/master/kmers.png\n   :alt: Kmers\n\n.. |travis| image:: https://travis-ci.org/LucaCappelletti94/fasta_one_hot_encoder.png\n   :target: https://travis-ci.org/LucaCappelletti94/fasta_one_hot_encoder\n   :alt: Travis CI build\n\n.. |sonar_quality| image:: https://sonarcloud.io/api/project_badges/measure?project=LucaCappelletti94_fasta_one_hot_encoder&metric=alert_status\n    :target: https://sonarcloud.io/dashboard/index/LucaCappelletti94_fasta_one_hot_encoder\n    :alt: SonarCloud Quality\n\n.. |sonar_maintainability| image:: https://sonarcloud.io/api/project_badges/measure?project=LucaCappelletti94_fasta_one_hot_encoder&metric=sqale_rating\n    :target: https://sonarcloud.io/dashboard/index/LucaCappelletti94_fasta_one_hot_encoder\n    :alt: SonarCloud Maintainability\n\n.. |sonar_coverage| image:: https://sonarcloud.io/api/project_badges/measure?project=LucaCappelletti94_fasta_one_hot_encoder&metric=coverage\n    :target: https://sonarcloud.io/dashboard/index/LucaCappelletti94_fasta_one_hot_encoder\n    :alt: SonarCloud Coverage\n\n.. |coveralls| image:: https://coveralls.io/repos/github/LucaCappelletti94/fasta_one_hot_encoder/badge.svg?branch=master\n    :target: https://coveralls.io/github/LucaCappelletti94/fasta_one_hot_encoder?branch=master\n    :alt: Coveralls Coverage\n\n.. |pip| image:: https://badge.fury.io/py/fasta_one_hot_encoder.svg\n    :target: https://badge.fury.io/py/fasta_one_hot_encoder\n    :alt: Pypi project\n\n.. |downloads| image:: https://pepy.tech/badge/fasta_one_hot_encoder\n    :target: https://pepy.tech/badge/fasta_one_hot_encoder\n    :alt: Pypi total project downloads \n\n.. |codacy|  image:: https://api.codacy.com/project/badge/Grade/b95f6c430646485c82a1f674253f4d42\n    :target: https://www.codacy.com/app/LucaCappelletti94/fasta_one_hot_encoder?utm_source=github.com&utm_medium=referral&utm_content=LucaCappelletti94/fasta_one_hot_encoder&utm_campaign=Badge_Grade\n    :alt: Codacy Maintainability\n\n.. |code_climate_maintainability| image:: https://api.codeclimate.com/v1/badges/7c5ae881132b6622be2b/maintainability\n    :target: https://codeclimate.com/github/LucaCappelletti94/fasta_one_hot_encoder/maintainability\n    :alt: Maintainability\n\n.. |code_climate_coverage| image:: https://api.codeclimate.com/v1/badges/7c5ae881132b6622be2b/test_coverage\n    :target: https://codeclimate.com/github/LucaCappelletti94/fasta_one_hot_encoder/test_coverage\n    :alt: Code Climate Coverate",
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