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Index for LoopDetect_for_Matlab
This page lists the MATLAB files included in LoopDetect_for_Matlab, a MATLAB function suite for detecting feedback loops in ordinary differential equation models.
MATLAB files in this directory
| File | Description |
|---|---|
compare_loop_list
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Compare two lists of loops. |
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find_edge
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Find loops in a loop list with a certain edge. |
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find_loops
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Compute feedback loops from a Jacobian or adjacency matrix. |
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find_loops_noscc
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Compute feedback loops from a Jacobian or adjacency matrix without first determining strongly connected components. |
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find_loops_vset
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Detect feedback loops from a function and sets of variable values. |
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func_POSm4
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Example function: chain with positive regulation, based on Baum et al., 2016. |
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func_li08
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Example function: bacterial cell-cycle model, based on Li et al., 2008. |
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loop_summary
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Compute loop counts in a feedback-loop list, subdivided by loop length and sign. |
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numerical_jacobian
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Determine a Jacobian matrix numerically using finite differences. |
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numerical_jacobian_complex
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Determine a Jacobian matrix numerically using the complex-step derivative approximation. |
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sort_loop_index
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Sort the indices within loops so that reported loops start with the lowest node index. |
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tarjan
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Determine strongly connected components using Tarjan's algorithm. |