BE/Bi 103 b: Statistical Inference in the Biological Sciences
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In the `prequel to this course `_, we developed tools to build data analysis pipelines, including the organization, preservation, sharing, and display quantitative data. We also learned basic techniques in statistical inference using resampling methods taking a frequentist approach.
In this class, we go deeper into statistical modeling and inference, mostly taking a Bayesian approach. We discuss generative modeling, parameter estimation, model comparison, hierarchical modeling, Markov chain Monte Carlo, graphical display of inference results, and principled workflows. All of these topics are explored through analysis of real biological data sets.
If you are enrolled in the course, please read the :ref:`Course policies` below. We will not go over them in detail in class, and it is your responsibility to understand them.
Useful links
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- `Ed `_ (used for course communications)
- `Canvas `_ (used for assignment submission/return)
- `Homework solutions `_ (password protected)
People
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- Instructor
+ `Justin Bois `_ (`bois at caltech dot edu`)
- TAs
+ Kayla Jackson
+ Zach Martinez
+ Kellan Moorse
.. toctree::
:maxdepth: 1
:caption: Lessons
lessons/00/index
lessons/01/index
lessons/02/index
lessons/03/plotting_posteriors.ipynb
lessons/04/marginalization_by_numerical_quadrature.ipynb
lessons/05/conjugacy.ipynb
lesson_exercises/exercise_01.ipynb
lessons/06/index
lesson_exercises/exercise_02.ipynb
lessons/07/index
lessons/08/index
lessons/09/mixture_model_stan.ipynb
lessons/10/variate_covariate_with_stan.ipynb
lesson_exercises/exercise_03.ipynb
lessons/11/index
lessons/12/prior_predictive_checks.ipynb
lessons/13/posterior_predictive_checks.ipynb
lesson_exercises/exercise_04.ipynb
lessons/14/box_of_distributions.rst
lessons/15/mcmc_diagnostics.ipynb
lessons/16/funnel_of_hell.ipynb
lesson_exercises/exercise_05.ipynb
lessons/17/model_comparison.rst
lessons/18/index
lesson_exercises/exercise_06.ipynb
lessons/19/index
lessons/20/hierarchical_implementation.ipynb
lesson_exercises/exercise_07.ipynb
lessons/21/sbc.ipynb
lessons/22/sbc_in_practice.ipynb
lesson_exercises/exercise_08.ipynb
lessons/23/intro_to_gps.ipynb
lessons/24/index
lessons/25/variational_inference.ipynb
lesson_exercises/exercise_09.ipynb
lessons/26/wrapup
.. toctree::
:maxdepth: 1
:caption: Recitations
recitations/01/probability_review.rst
recitations/02/choosing_priors.rst
recitations/03/just_hw_help.rst
recitations/04/index
recitations/05/practice_model_building.ipynb
recitations/06/HPC.ipynb
recitations/07/sampling_discrete_parameters.ipynb
recitations/08/project_proposals.rst
recitations/09/just_hw_help.rst
.. toctree::
:maxdepth: 1
:caption: Homework
0. Configuring your team
homework/01/index
homework/02/index
homework/03/index
homework/04/index
homework/05/index
homework/06/index
homework/07/index
homework/08/index
homework/09/index
homework/10/index
11. Course feedback
.. toctree::
:maxdepth: 1
:caption: Schedule
schedule
.. toctree::
:maxdepth: 1
:caption: Policies
policies
.. toctree::
:maxdepth: 1
:caption: Resources
resources
Previous editions of the course
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- `Winter 2022 `_
- `Winter 2021 `_
- `Winter 2020 `_