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History
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1.0.0
~~~~~
* coming soon!

0.4.0 - after (June 2024 - July 2024)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
* add command line interface, i.e. ``screenpro --help``
* rename ``Counter`` class to ``GuideCounter`` for code clarity
* key bug fixes and improvements in phenotype calculation, normalization, and statistics
* major bug fixes and improvements in code formatting

0.2.11 - 0.3.5 (Apr 2024 - June 2024)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
* introduce ``Counter`` class as wrapper for ``ngs`` module
* improve core functionalities for CLI
* major bug fixes

0.2.7 - 0.2.10 (Mar 2024 - Apr 2024)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
* major reformatting and introduce alpha version of CLI
* introduce ``ngs`` module – process fastq files from single, dual, or multiplexed Cas9 and Cas12 screens

  * Support both single-guide and dual-guide Cas9 library design `#37`_
    (i.e. V2 and V3 genome-scale dCas9 screen platforms)

  * Support higher-order Cas12 screens `#39`_

* phenoScore and phenoStats modules

  * add missing features to support single-guide-design screens (i.e. V2 CRISPRi/a screens)

0.2.5 – 0.2.6 (Dec 2023 - Feb 2024)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
* public release on Arc's website https://arcinstitute.org/tools/screenpro2
* improve the conda environment and docker config files
* improve documentation
* split phenoScore and phenoStats modules
* fix bugs in phenotype score calculation and growth rate normalization

0.2.1 - 0.2.4 (July 2023 - Nov 2023)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
* Included PyPi package installation.
* Introduced ``ScreenPro`` class.
* Introduced a method in ``ScreenPro`` class for common drug screen analysis.

0.2.0 (May 2022)
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* Stable python 3 version.
* Reorganized `ScreenProcessing`_ pipeline into python modules
* Include ReadTheDocs documentations – `screenpro2.rtfd.io`_
* Enable exploratory data analysis

.. _ScreenProcessing: https://github.com/mhorlbeck/ScreenProcessing
.. _screenpro2.rtfd.io: https://screenpro2.rtfd.io
.. _#37: https://github.com/ArcInstitute/ScreenPro2/issues/37
.. _#39: https://github.com/ArcInstitute/ScreenPro2/issues/39