Metadata-Version: 2.1
Name: insilicosv
Version: 0.0.5
Summary: Simulator of complex structural variants in genomes
Home-page: https://github.com/PopicLab/insilicoSV
Author-email: Chris Rohlicek <crohlice@broadinstitute.org>, Nick Jiang <nickj@berkeley.edu>, Ilya Shlyakhter <ilya@broadinstitute.org>, Victoria Popic <vpopic@broadinstitute.org>
License: MIT
Project-URL: Homepage, https://github.com/PopicLab/insilicoSV
Project-URL: Issues, https://github.com/PopicLab/insilicoSV/issues
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: OS Independent
Requires-Python: >=3.8
Description-Content-Type: text/markdown
License-File: LICENSE
Requires-Dist: cycler
Requires-Dist: kiwisolver
Requires-Dist: matplotlib
Requires-Dist: numpy
Requires-Dist: Pillow
Requires-Dist: pyparsing
Requires-Dist: pysam
Requires-Dist: python-dateutil
Requires-Dist: PyYAML
Requires-Dist: six

# insilicoSV: a framework for structural variant simulation 

## Overview

TODO

## Installation

Prerequisite: Python 3.8 and up - [Install](https://www.python.org/downloads/)

Installation using pip:

* `$ pip install insilicosv`

## To Run
```
insilicosv <reference_fasta> <config_yml> <output_prefix>
```

## Documentation
For documentation outlining the different features of insilicoSV along with usage examples and data resources, please refer to the wiki:
<!-- toc -->
- [Input guidelines](docs/input_guidelines.md)
- [Example Use Cases](docs/example_use_cases.md)
- [SV Grammar](docs/sv_grammar.md)
- [Benchmark Genomes](docs/benchmark_genomes.md)
- [Additional Utilities](docs/automated_pipelines_and_additional_utilities.md)
- [Example SV Visualizations](docs/example_sv_visualizations.md)


## Authors
Chris Rohlicek - crohlice@broadinstitute.org

Nick Jiang - nickj@berkeley.edu

Ilya Shlyakhter - ilya@broadinstitute.org

Victoria Popic - vpopic@broadinstitute.org
