{ "info": { "author": "Leszek Pryszcz", "author_email": "l.p.pryszcz+distutils@gmail.com", "bugtrack_url": null, "classifiers": [ "Development Status :: 4 - Beta", "Programming Language :: Python :: 2", "Programming Language :: Python :: 2.7" ], "description": "FastaIndex\n==========\n\nFastA index (.fai) handler compatible with `samtools faidx `_.\n.fai is extended with 4 columns storing counts for A, C, G & T for each sequence.\n\nUsage\n-----\n\nDependencies\n~~~~~~~~~~~~\n- Python 2.7\n\nParameters\n~~~~~~~~~~\n\n -h, --help show this help message and exit\n --version show program's version number and exit\n -v, --verbose verbose\n -i FASTA, --fasta FASTA\n FASTA file(s)\n -o OUT, --out OUT output stream\t [stdout]\n -r REGIONS, --regions REGIONS\n contig(s) or contig region(s) to output (returns reverse complement if end larger than start)\n -N N calculate NXX and exit ie N50\n -L L calculate LXX and exit ie L50\n -S, --stats return FastA stats aka fasta_stats\n\n\nExamples\n~~~~~~~~\n\n.. code-block:: bash\n\n # retrieve sequence of scaffold00001 starting at 100 and ending at 200 base (0-based)\n FastaIndex -i contigs.fa -r 'scaffold00001:100-200'\n\n # retrieve reverse complement of the same region\n FastaIndex -i contigs.fa -r 'scaffold00001:200-100'\n\n # calculate N50 of FastA file\n FastaIndex -i contigs.fa -N50\n\n # more statistics of FastA file\n FastaIndex -i contigs.fa -S\n # or\n fasta_stats -i contigs.fa\n\nInstallation\n------------\n\n.. code-block:: bash\n\n sudo pip install -U FastaIndex\n\n\n\n", "description_content_type": null, "docs_url": null, "download_url": "", "downloads": { "last_day": -1, "last_month": -1, "last_week": -1 }, "home_page": "https://github.com/lpryszcz/FastaIndex", "keywords": "FastA indexing stats N50 N90", "license": "GPLv2", "maintainer": "", "maintainer_email": "", "name": "FastaIndex", "package_url": "https://pypi.org/project/FastaIndex/", "platform": "", "project_url": "https://pypi.org/project/FastaIndex/", "project_urls": { "Homepage": "https://github.com/lpryszcz/FastaIndex" }, "release_url": "https://pypi.org/project/FastaIndex/0.11rc7/", "requires_dist": null, "requires_python": "", "summary": "", "version": "0.11rc7" }, "last_serial": 2584910, "releases": { "0.11rc7": [ { "comment_text": "", "digests": { "md5": "d51eb93e3597f532d13048630430a3a2", "sha256": "2f7fa2c86c39b11a9a8c545ed1cd9d9bc16faa3758dfdebe800766ab41e04132" }, "downloads": -1, "filename": "FastaIndex-0.11rc7-py2-none-any.whl", "has_sig": false, "md5_digest": "d51eb93e3597f532d13048630430a3a2", "packagetype": "bdist_wheel", "python_version": "py2", "requires_python": null, "size": 9543, "upload_time": "2017-01-17T16:54:41", "url": "https://files.pythonhosted.org/packages/ee/24/2da46550b77abc0a546deb81a8a43df403a0ae224ed052081eea0fc4a57d/FastaIndex-0.11rc7-py2-none-any.whl" }, { "comment_text": "", "digests": { "md5": "882c973d968d9db596edfd0fbb07e3a8", "sha256": "c130a2146bb178ea4f9d228e0d360787046ab4cb0ab53b5b43711dd57e31aff7" }, "downloads": -1, "filename": "FastaIndex-0.11rc7.tar.gz", "has_sig": false, "md5_digest": "882c973d968d9db596edfd0fbb07e3a8", "packagetype": "sdist", "python_version": "source", "requires_python": null, "size": 20062, "upload_time": "2017-01-19T13:51:08", "url": "https://files.pythonhosted.org/packages/22/48/79bd2a63321fca01e68383eb6b681964d365cebdf83bf357674bf2f2839b/FastaIndex-0.11rc7.tar.gz" } ] }, "urls": [ { "comment_text": "", "digests": { "md5": "d51eb93e3597f532d13048630430a3a2", "sha256": "2f7fa2c86c39b11a9a8c545ed1cd9d9bc16faa3758dfdebe800766ab41e04132" }, "downloads": -1, "filename": "FastaIndex-0.11rc7-py2-none-any.whl", "has_sig": false, "md5_digest": "d51eb93e3597f532d13048630430a3a2", "packagetype": "bdist_wheel", "python_version": "py2", "requires_python": null, "size": 9543, "upload_time": "2017-01-17T16:54:41", "url": "https://files.pythonhosted.org/packages/ee/24/2da46550b77abc0a546deb81a8a43df403a0ae224ed052081eea0fc4a57d/FastaIndex-0.11rc7-py2-none-any.whl" }, { "comment_text": "", "digests": { "md5": "882c973d968d9db596edfd0fbb07e3a8", "sha256": "c130a2146bb178ea4f9d228e0d360787046ab4cb0ab53b5b43711dd57e31aff7" }, "downloads": -1, "filename": "FastaIndex-0.11rc7.tar.gz", "has_sig": false, "md5_digest": "882c973d968d9db596edfd0fbb07e3a8", "packagetype": "sdist", "python_version": "source", "requires_python": null, "size": 20062, "upload_time": "2017-01-19T13:51:08", "url": "https://files.pythonhosted.org/packages/22/48/79bd2a63321fca01e68383eb6b681964d365cebdf83bf357674bf2f2839b/FastaIndex-0.11rc7.tar.gz" } ] }