Function reference
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new_arg_set()
add_arg_ele()
nele()
narg()
print(<arg_set>)
make_arg_grid()
print(<arg_grid>)
- Create and modify argument sets, then make an argument grid for batch simulation
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attach_all_matrices()
- Attach all matrices in a batch simulation
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autolayer(<barrier>)
- Get a ggplot2 layer from a barrier object
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batch_simulation()
print(<batch_simulation>)
- Perform a batch simulation.
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calculate_barrier()
- Functions for calculating energy barrier from landscapes
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check_conv()
print(<check_conv>)
- Graphical diagnoses to check if the simulation converges
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get_dist()
- Get the probability distribution from a landscape object
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as_hash_big_matrix()
attach_hash_big_matrix()
- Class "hash_big_matrix": big matrix with a md5 hash reference
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make_2d_matrix()
- Make a matrix of 2D static landscape plots for one or two parameters
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make_2d_static()
make_2d_single()
- Make 2D static landscape plot for a single simulation output
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make_3d_animation()
- Make 3d animations from multiple simulations
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make_3d_matrix()
- Make a matrix of 3D static landscape plots for one or two parameters
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make_3d_static()
make_3d_single()
- Make 3D static landscape plots from simulation output
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make_4d_static()
make_4d_single()
- Make 4D static space-color plots from simulation output
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make_barrier_grid_2d()
- Make a grid for calculating barriers for 2d landscapes
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make_barrier_grid_3d()
- Make a grid for calculating barriers for 3d landscapes
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plot(<landscape>)
- Make plots from landscape objects
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save_landscape()
- Save landscape plots
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sim_fun_grad()
- A simple gradient simulation function for testing
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sim_fun_nongrad()
- A simple non-gradient simulation function for testing
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sim_fun_test()
- A simple simulation function for testing
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summary(<barrier>)
- Summarize the barrier height from a
barrier
object