Feature/dyngen #119
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Feature/dyngen #119
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v1.0.12.post1
scottgigante
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Feb 18, 2021
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scottgigante
requested changes
Feb 19, 2021
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One more note - these formatting issues should be fixed: https://github.com/aarthivenkat/scprep/runs/1936473492?check_suite_focus=true#step:7:1 |
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Also, could you please write tests for |
scottgigante
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Mar 3, 2021
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Thanks for the PR! |
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Dyngen is a multi-modal simulation engine for studying dynamic cellular processes at single-cell resolution. The backbone of a dyngen model determines the overall dynamic process that a cell will undergo during a simulation. It consists of a set of gene modules, which regulate each other in such a way that expression of certain genes change over time in a specific manner.
dyngen.py consists of three functions to (1) install dyngen (2) get a list of backbones, and (3) generate simulated datasets. Generating simulated datasets by default will return a cell_info dataframe and an expression dataframe. Optional arguments offer ground truth regulatory networks (bulk and cellwise) and RNA velocity measurements.
More information at https://github.com/dynverse/dyngen.