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_toc.yml
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_toc.yml
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# Learn more at https://jupyterbook.org/customize/toc.html
format: jb-book
root: index
options: # The options key will be applied to all chapters, but not sub-sections
numbered: True
parts:
- caption: Getting Started
chapters:
- file: 0_python/intro
sections:
- file: 0_python/intro2py
- file: 0_python/intro2numpy
- file: 0_python/intro2viz
- file: 1_stats/intro
sections:
- file: 1_stats/01_SetsCounting
- file: 1_stats/02_RandVar
- file: 1_stats/03_Diffusion
- file: 1_stats/04_Entropy
- file: 2_thermo/intro
sections:
- file: 2_thermo/01_Thermo
- file: 2_thermo/02_Legendre
- caption: Chapters
chapters:
- file: 3_ensembles/intro
sections:
- file: 3_ensembles/ensemble_overview
- file: 3_ensembles/phase_space
- file: 3_ensembles/nve
- file: 3_ensembles/nvt
- file: 3_ensembles/npt
- file: 4_ideal_systems/intro
sections:
- file: 4_ideal_systems/quantum_systems
- file: 4_ideal_systems/photons_phonons
- file: 6_ising/intro
sections:
- file: 6_ising/00_MC
- file: 6_ising/01_MCMC
- file: 6_ising/02_phase_tranistions
- file: 6_ising/03_MeanField
- file: 6_ising/03_vdw
- file: 6_ising/04_analytic
- file: 6_ising/05_EnhanceSampl
- file: 7_fluids/intro
sections:
- file: 7_fluids/Intro2Fluids
- file: 7_fluids/mc_lj
- file: 7_fluids/Intro2MD.ipynb
- file: 7_fluids/md_lj
- file: 8_kinetics/intro
sections:
- file: 8_kinetics/langevin
- caption: Labs
chapters:
- file: labs/lab1/intro
sections:
- file: labs/lab1/sinc_function
- file: labs/lab1/linear_functions
- file: labs/lab2/intro
sections:
- file: labs/lab2/polymer-conf
- file: labs/lab4/intro
sections:
- file: labs/lab4/nvt_application
- file: labs/lab4/TwoState
- file: labs/lab4/mass_action
- file: labs/lab5/intro
sections:
- file: labs/lab5/torch_ising
- file: labs/lab5/Wolf
- file: labs/lab5/enhance-sampling
- file: labs/lab6/intro
sections:
- file: labs/lab6/openmm_double_well
- file: labs/lab6/openmm_lj_chain
- file: labs/lab6/openmm_ethane
- file: labs/lab6/openmm_villin