fwdpy11
This is the README for fwdpy11_, which is a Python package for forward-time population genetic simulation. It uses fwdpp_ as its C++ back-end.
Main:
.. image:: https://github.com/molpopgen/fwdpy11/workflows/Tests/badge.svg?branch=main :target: https://github.com/molpopgen/fwdpy11/workflows/Tests/badge.svg?branch=main
.. image:: https://github.com/molpopgen/fwdpy11/workflows/UbuntuStressTest/badge.svg?branch=main :target: https://github.com/molpopgen/fwdpy11/workflows/UbuntuStressTest/badge.svg?branch=main
Development:
.. image:: https://github.com/molpopgen/fwdpy11/workflows/Tests/badge.svg?branch=dev :target: https://github.com/molpopgen/fwdpy11/workflows/Tests/badge.svg?branch=dev
.. image:: https://github.com/molpopgen/fwdpy11/workflows/UbuntuStressTest/badge.svg?branch=dev :target: https://github.com/molpopgen/fwdpy11/workflows/UbuntuStressTest/badge.svg?branch=dev
.. image:: https://anaconda.org/bioconda/fwdpy11/badges/version.svg
:target: https://anaconda.org/bioconda/fwdpy11
.. image:: https://anaconda.org/bioconda/fwdpy11/badges/platforms.svg
:target: https://anaconda.org/bioconda/fwdpy11
Python code style:
.. image:: https://img.shields.io/badge/code%20style-black-000000.svg :target: https://github.com/psf/black
The manual can be found here <https://molpopgen.github.io/fwdpy11>_.
GPLv3 or later (See COPYING)
fwdpy11 is written for Python 3. We will not modify the package to be compatible with Python 2.7.
These topics are covered in the user manual:
fwpdy11 should see this section <https://molpopgen.github.io/fwdpy11/pages/userenv.html>_.the developer's guide <https://molpopgen.github.io/fwdpy11/misc/developersguide.html>_.If you use this software for research, please cite the following publications:
Kevin R Thornton. Polygenic adaptation to an environmental shift: temporal dynamics of variation under gaussian stabilizing selection and additive effects on a single trait. Genetics, 213(4):1513–1530, December 2019.
Kevin R Thornton. A c++ template library for efficient forward-time population genetic simulation of large populations. Genetics, 198(1):157–166, September 2014.
This software was developed for the first paper. The second paper describes a key part of this software's back end.
.. _fwdpy11: https://github.com/molpopgen/fwdpy11 .. _fwdpp: https://github.com/molpopgen/fwdpp .. _GSL: http://gnu.org/software/gsl .. _pybind11: https://github.com/pybind/pybind11 .. _multiprocessing: https://docs.python.org/3/library/multiprocessing.html .. _concurrent.futures: https://docs.python.org/3/library/concurrent.futures.html .. _bioconda: https://bioconda.github.io/ .. _release: https://github.com/molpopgen/fwdpy11/releases .. _cmake: https://cmake.org
FAQs
Forward-time population genetic simulation in Python
We found that fwdpy11 demonstrated a healthy version release cadence and project activity because the last version was released less than a year ago. It has 1 open source maintainer collaborating on the project.
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