{ "info": { "author": "Jay Hesselberth", "author_email": "jay.hesselberth@gmail.com", "bugtrack_url": null, "classifiers": [ "License :: OSI Approved :: MIT License" ], "description": "# ucsc\\_snapshots documentation\n\n**Version**: 0.1.8\n\n## Summary\n\nucsc\\_snapshots retrieves pictures from UCSC Genome Browser based on\ncoordinates specified from BED3+ file and a session ID (hgsid).\n\nUCSC Genome Browser should be set up with tracks prior to using the\nutility and saved as a session. This includes all track settings, sizes\netc. Once these are setup, you can load the page source and identify the\nhgsid by searching for \"hgsid=\"\n\nSupply the hgsid and a BED file. Images will be retrieved based on the\ncoordinates in the BED file and saved to the directory as:\n\n ucsc-snapshots-/chrom-start-end.pdf\n\n ucsc-snapshots-/chrom-start-end.png\n\n## Warnings\n\nif you have many regions, you may need to run this overnight as thet\nUCSC limit s 1 request per 15 sec and 5000 requests per day.\n\n**Beware** of multiple procs accessessing the same hgsid at the same time,\nthey will affect each other's strand settings\n\n## Examples\n\nThe simplest case, just fetch images:\n\n ucsc_snapshots BED3+ SESSIONID\n\nRetrieve snapshots maintaining the display with 5'->3' orientation using\nthe strand field from the BED file:\n\n ucsc_snapshots BED3+ SESSIONID --reverse-display\n\nAdd an annotation to the output directory\n(directory becomes ucsc-snapshots--annotation/):\n\n ucsc_snapshots BED3+ SESSIONID --dir-annotation celltype=MCF7\n\nOutput PNG files only (default is PDF and PNG):\n\n ucsc_snapshots BED3+ SESSIONID --img-types png\n\n## Installation\n\n pip install ucsc_snapshots", "description_content_type": null, "docs_url": null, "download_url": "UNKNOWN", "downloads": { "last_day": -1, "last_month": -1, "last_week": -1 }, "home_page": "https://github.com/jayhesselberth/ucsc_snapshots", "keywords": null, "license": "MIT", "maintainer": null, "maintainer_email": null, "name": "ucsc_snapshots", "package_url": "https://pypi.org/project/ucsc_snapshots/", "platform": "UNKNOWN", "project_url": "https://pypi.org/project/ucsc_snapshots/", "project_urls": { "Download": "UNKNOWN", "Homepage": "https://github.com/jayhesselberth/ucsc_snapshots" }, "release_url": "https://pypi.org/project/ucsc_snapshots/0.1.8/", "requires_dist": null, "requires_python": null, "summary": "fetch images from the UCSC genome browser using BED regions", "version": "0.1.8" }, "last_serial": 1468452, "releases": { "0.1.3": [], "0.1.4": [], "0.1.5": [ { "comment_text": "", "digests": { "md5": "d624baab341e4e7ba720c92b14a48d6f", "sha256": "7a423d6c0137c496aa1e58b91878c176610b0b592a179dbeaddfa56ff033e369" }, "downloads": -1, "filename": "ucsc_snapshots-0.1.5.tar.gz", "has_sig": false, "md5_digest": "d624baab341e4e7ba720c92b14a48d6f", "packagetype": "sdist", "python_version": "source", "requires_python": null, "size": 1862, "upload_time": "2015-03-19T11:32:38", "url": "https://files.pythonhosted.org/packages/a5/49/7d4ed77f26296d48bdfa3ff53f971d943c6fc1e89e8cd98b289a6a28715a/ucsc_snapshots-0.1.5.tar.gz" } ], "0.1.6": [ { "comment_text": "", "digests": { "md5": "ebc3794d6866f3b31f8603313bf9b3ed", "sha256": "ee282e4096a13e2d68f05be674ccdc9718e3e9eacee25425371fdb346920cb82" }, "downloads": -1, "filename": "ucsc_snapshots-0.1.6.tar.gz", "has_sig": false, "md5_digest": "ebc3794d6866f3b31f8603313bf9b3ed", "packagetype": "sdist", "python_version": "source", "requires_python": null, "size": 1759, "upload_time": "2015-03-19T12:53:22", "url": "https://files.pythonhosted.org/packages/d1/bf/5e7d97e737ddfbdce1992eb2f32ffea00f16e6691436e02e202c9ce34990/ucsc_snapshots-0.1.6.tar.gz" } ], "0.1.7": [], "0.1.8": [ { "comment_text": "", "digests": { "md5": "eb4966f03a79a116e28df3084e5cfaad", "sha256": "853024fd25eddeddf27191c3b500231c22364f1cdc7f57c8cdb7970d63d7c9de" }, "downloads": -1, "filename": "ucsc_snapshots-0.1.8.tar.gz", "has_sig": false, "md5_digest": "eb4966f03a79a116e28df3084e5cfaad", "packagetype": "sdist", "python_version": "source", "requires_python": null, "size": 1931, "upload_time": "2015-03-19T13:09:05", "url": "https://files.pythonhosted.org/packages/88/0b/7c8638bb2f13ac3372d64a952ba2e0258d8a52906c195e902c4944f7cd9b/ucsc_snapshots-0.1.8.tar.gz" } ] }, "urls": [ { "comment_text": "", "digests": { "md5": "eb4966f03a79a116e28df3084e5cfaad", "sha256": "853024fd25eddeddf27191c3b500231c22364f1cdc7f57c8cdb7970d63d7c9de" }, "downloads": -1, "filename": "ucsc_snapshots-0.1.8.tar.gz", "has_sig": false, "md5_digest": "eb4966f03a79a116e28df3084e5cfaad", "packagetype": "sdist", "python_version": "source", "requires_python": null, "size": 1931, "upload_time": "2015-03-19T13:09:05", "url": "https://files.pythonhosted.org/packages/88/0b/7c8638bb2f13ac3372d64a952ba2e0258d8a52906c195e902c4944f7cd9b/ucsc_snapshots-0.1.8.tar.gz" } ] }