{ "info": { "author": "Shujia Huang & Siyang Liu", "author_email": "huangshujia9@gmail.com", "bugtrack_url": null, "classifiers": [ "Intended Audience :: Science/Research", "License :: OSI Approved :: BSD License", "Operating System :: MacOS", "Operating System :: POSIX", "Operating System :: POSIX :: Linux", "Programming Language :: Python :: 2.7", "Programming Language :: Python :: 3.7", "Topic :: Scientific/Engineering :: Bio-Informatics" ], "description": "BaseVar\n=======\n\nCall variants from ultra low-pass WGS data.\n\nInstallation\n------------\n\n.. code:: bash\n\n\n pip install basevar\n\nQuick start\n-----------\n\nCall variants from several bamfiles\n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~\n\n.. code:: bash\n\n basevar basetype -R reference.fasta \\\n --regions chr11:5246595-5248428,chr17:41197764-41276135 \\\n --batch-count 50 \\\n -I 00alzqq6jw.bam \\\n -I 09t3r9n2rg.bam \\\n -I 0fkpl1p55b.bam \\\n -I 13dg1gvsfk.bam \\\n -I 17phildszl.bam \\\n -I 1dbpgqt0dq.bam \\\n -I 1kyws27hoc.bam \\\n --output-vcf test.vcf.gz \\\n --output-cvg test.cvg.tsv.gz \\\n --nCPU 4 && echo \"** 5 done **\"\n\nOr call variants from bamlist\n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~\n\n.. code:: bash\n\n\n basevar basetype -R reference.fasta \\\n --regions chr11:5246595-5248428,chr17:41197764-41276135 \\\n --batch-count 50 \\\n -L bamfile.list \\ \n --output-vcf test.vcf.gz \\\n --output-cvg test.cvg.tsv.gz \\\n --nCPU 4 && echo \"** 5 done **\"\n\n", "description_content_type": "", "docs_url": null, "download_url": "https://github.com/ShujiaHuang/basevar", "downloads": { "last_day": -1, "last_month": -1, "last_week": -1 }, "home_page": "https://github.com/ShujiaHuang/basevar", "keywords": "", "license": "BSD (3-clause)", "maintainer": "", "maintainer_email": "", "name": "basevar", "package_url": "https://pypi.org/project/basevar/", "platform": "", "project_url": "https://pypi.org/project/basevar/", "project_urls": { "Download": "https://github.com/ShujiaHuang/basevar", "Homepage": "https://github.com/ShujiaHuang/basevar" }, "release_url": "https://pypi.org/project/basevar/0.0.1.3/", "requires_dist": null, "requires_python": "", "summary": "BaseVar: A python software for calling variants from ultra low pass WGS data.", "version": "0.0.1.3" }, "last_serial": 5008583, "releases": { "0.0.1.1": [ { "comment_text": "", "digests": { "md5": "76340a54d9b8a0a1ba3b721644a679e2", "sha256": "2e1295c63d8d46d2febc353abf9564aebc811a8d951fd1917f191cbfbc577553" }, "downloads": -1, "filename": "basevar-0.0.1.1.tar.gz", "has_sig": false, "md5_digest": "76340a54d9b8a0a1ba3b721644a679e2", "packagetype": "sdist", "python_version": "source", "requires_python": null, "size": 38412, "upload_time": "2019-03-22T12:48:29", "url": "https://files.pythonhosted.org/packages/f1/4f/062da4597456679cee8e23102e6b3389543f197bfe2a4f207f33371e5a43/basevar-0.0.1.1.tar.gz" } ], "0.0.1.2": [ { "comment_text": "", "digests": { "md5": "ca4e6b99f6d793d7fd4ced6a6a19c35f", "sha256": "20f3dbb8c47b5539a117af9c231488613cd09fb4ba9c039deb7f7c09fabc340d" }, "downloads": -1, "filename": "basevar-0.0.1.2.tar.gz", "has_sig": false, "md5_digest": "ca4e6b99f6d793d7fd4ced6a6a19c35f", "packagetype": "sdist", "python_version": "source", "requires_python": null, "size": 38441, "upload_time": "2019-03-22T13:12:01", "url": "https://files.pythonhosted.org/packages/98/a2/f8d9b952d44ed03295bf269a6ae62e7d2a9e1f981b5a62c71ab95480314b/basevar-0.0.1.2.tar.gz" } ], "0.0.1.3": [ { "comment_text": "", "digests": { "md5": "3208732ae76ab345c09376858cd66fd8", "sha256": "fc90cb46ee40337f7b0df07a3aa0f2f890feb5b87e4bb4712b04d7fe7e563f7b" }, "downloads": -1, "filename": "basevar-0.0.1.3.tar.gz", "has_sig": false, "md5_digest": "3208732ae76ab345c09376858cd66fd8", "packagetype": "sdist", "python_version": "source", "requires_python": null, "size": 40135, "upload_time": "2019-03-31T04:31:26", "url": "https://files.pythonhosted.org/packages/2c/1f/f6602f21ea01fa7797ef3b14d1e489149d62699a08f135199a4257538647/basevar-0.0.1.3.tar.gz" } ] }, "urls": [ { "comment_text": "", "digests": { "md5": "3208732ae76ab345c09376858cd66fd8", "sha256": "fc90cb46ee40337f7b0df07a3aa0f2f890feb5b87e4bb4712b04d7fe7e563f7b" }, "downloads": -1, "filename": "basevar-0.0.1.3.tar.gz", "has_sig": false, "md5_digest": "3208732ae76ab345c09376858cd66fd8", "packagetype": "sdist", "python_version": "source", "requires_python": null, "size": 40135, "upload_time": "2019-03-31T04:31:26", "url": "https://files.pythonhosted.org/packages/2c/1f/f6602f21ea01fa7797ef3b14d1e489149d62699a08f135199a4257538647/basevar-0.0.1.3.tar.gz" } ] }