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UserManual.md

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@@ -8,7 +8,7 @@ For a full set of options run `sbmodelr --help` on the command line.
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### Examples
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The rest of this document describes the many options that are available in *sbmodelr*, but specific examples of usage are provided in the `examples` folder, which illustrate real-world usage of this tool, mostly replicating existing modeling papers. The examples are:
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- [Cells in a medium](examples/Cells_in_medium#README.md): single cell organisms with species transported to the medium
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- [Cells in a medium](examples/Cells_in_medium#cells-in-medium): single cell organisms with species transported to the medium
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- [Row of cells with gap junctions](examples/Row_of_cells_gap_junctions): cells connected end-to-end by gap junctions
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- [Array of oscillating cells](examples/Array_of_oscillating_cells): a square array of cells in a medium with diffusion
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- [Neuron networks I](examples/Neuron_networks_I): small(ish) networks using a Hodgkin-Huxley-type model

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