coppafish

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0.1.6 coppafish-0.1.6-py3-none-any.whl

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Project: coppafish
Version: 0.1.6
Filename: coppafish-0.1.6-py3-none-any.whl
Download: [link]
Size: 281167
MD5: 2a743e07bd2a4ec874a01a24ef93a06c
SHA256: 8fca1cffa508f6eec654025744c76a6ce2ff07e3d5301256cc8d7a27135c2561
Uploaded: 2022-08-24 14:59:11 +0000

dist-info

METADATA

Metadata-Version: 2.1
Name: coppafish
Version: 0.1.6
Summary: coppaFISH software for Python
Author: Josh Duffield
Author-Email: jduffield65[at]gmail.com
Maintainer: Reilly Tilbury
Maintainer-Email: reillytilbury[at]gmail.com
Home-Page: https://jduffield65.github.io/coppafish/
License: MIT
Classifier: Development Status :: 4 - Beta
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: MIT License
Classifier: Programming Language :: Python :: 3
Classifier: Topic :: Scientific/Engineering
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Requires-Python: >=3.8
Requires-Dist: numpy
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Requires-Dist: sphinx
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Requires-Dist: matplotlib; extra == "plotting"
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Requires-Dist: freetype-py; extra == "plotting"
Provides-Extra: optimised
Provides-Extra: plotting
Description-Content-Type: text/markdown
License-File: LICENSE.md
[Description omitted; length: 1013 characters]

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