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        "author": "S Mishu Ashiqul Islam",
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        "description": "# SigProfilerSingleSample\nSigProfilerSingleSample allows attributing a known set of mutational signatures to an individual sample. The tool identifies the activity of each signature in the sample and assigns the probability for each signature to cause a specific mutation type in the sample. The tool makes use of SigProfilerMatrixGenerator, SigProfilerExtractor and SigProfilerPlotting. \n\n## INSTALLATION\nIn the commandline, please type the following line:\n```\n$pip install sigproSS\n```\nInstall your desired reference genome from the command line/terminal as follows (available reference genomes are: GRCh37, GRCh38, mm9, and mm10):\n```\n$ python\n>> from SigProfilerMatrixGenerator import install as genInstall\n>> genInstall.install('GRCh37')\n```\nThis will install the human 37 assembly as a reference genome. You may install as many genomes as you wish.\n\nopen a python interpreter and import the SigProfilerExtractor module. Please see the examples of the functions. \n\n## FUNCTIONS\n\n### importdata \n\n\n    Imports the path of example data.\n\n    importdata()\n\n    Example: \n    -------\n    >>> from sigproSS import spss \n    >>> data = spss.importdata()\n    This \"data\" variable can be used as a parameter of the first argument of the sigproSS function.\n\n    To get help on the parameters and outputs of the \"importdata\" function, please write down the following line:\n\n    >>> help(spss.importdata)\n\n### single_sample\n\n    Decompose the query samples into the global signatures.\n\n    single_sample(vcf, outputdir, exome=False)\n\n    Example: \n    -------\n    >>> from sigproSS import spss \n    >>> data = spss.importdata()\n    >>> spss.single_sample(data, \"results\", ref=\"GRCh37\", exome=False)\n\n    To get help on the parameters and outputs of the \"importdata\" function, please write down the following line:\n\n    >>> help(spss.single_sample)\n## COPYRIGHT\nThis software and its documentation are copyright 2018 as a part of the sigProfiler project. The SigProfilerExtractor framework is free software and is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.\n\n## CONTACT INFORMATION\nPlease address any queries or bug reports to S M Ashiqul Islam (Mishu) at m0islam.ucsd.edu\n\n\n",
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