Statistical Rethinking course winter 2022

Overview

Statistical Rethinking (2022 Edition)

Instructor: Richard McElreath

Lectures: Uploaded <Playlist> and pre-recorded, two per week

Discussion: Online, Fridays 3pm-4pm Central European Time

Purpose

This course teaches data analysis, but it focuses on scientific models first. The unfortunate truth about data is that nothing much can be done with it, until we say what caused it. We will prioritize conceptual, causal models and precise questions about those models. We will use Bayesian data analysis to connect scientific models to evidence. And we will learn powerful computational tools for coping with high-dimension, imperfect data of the kind that biologists and social scientists face.

Format

Online, flipped instruction. The lectures are pre-recorded. We'll meet online once a week for an hour to work through the solutions to the assigned problems.

We'll use the 2nd edition of my book, <Statistical Rethinking>. I'll provide a PDF of the book to enrolled students.

Registration: Please sign up via <[COURSE IS FULL SORRY]>. I've also set aside 100 audit tickets at the same link, for people who want to participate, but who don't need graded work and course credit.

Calendar & Topical Outline

There are 10 weeks of instruction. Links to lecture recordings will appear in this table. Weekly problem sets are assigned on Fridays and due the next Friday, when we discuss the solutions in the weekly online meeting.

Lecture playlist on Youtube: <Statistical Rethinking 2022>

Week ## Meeting date Reading Lectures
Week 01 07 January Chapters 1, 2 and 3 [1] <The Golem of Prague> <(Slides)>
[2] <Bayesian Inference> <(Slides)>
Week 02 14 January Chapters 4 and 5 [3] <Basic Regression> <(Slides)>
[4] <Categories & Curves> <(Slides)>
Week 03 21 January Chapters 5 and 6 [5] <Elemental Confounds> <(Slides)>
[6] <Good & Bad Controls> <(Slides)>
Week 04 28 January Chapters 7 and 8 [7] Overfitting
[8] Interactions
Week 05 04 February Chapters 9, 10 and 11 [9] Markov chain Monte Carlo
[10] Binomial GLMs
Week 06 11 February Chapters 11 and 12 [11] Poisson GLMs
[12] Ordered Categories
Week 07 18 February Chapter 13 [13] Multilevel Models
[14] Multi-Multilevel Models
Week 08 25 February Chapter 14 [15] Varying Slopes
[16] Gaussian Processes
Week 09 04 March Chapter 15 [17] Measurement Error
[18] Missing Data
Week 10 11 March Chapters 16 and 17 [19] Beyond GLMs: State-space Models, ODEs
[20] Horoscopes

Coding

This course involves a lot of scripting. Students can engage with the material using either the original R code examples or one of several conversions to other computing environments. The conversions are not always exact, but they are rather complete. Each option is listed below.

Original R Flavor

For those who want to use the original R code examples in the print book, you need to install the rethinking R package. The code is all on github https://github.com/rmcelreath/rethinking/ and there are additional details about the package there, including information about using the more-up-to-date cmdstanr instead of rstan as the underlying MCMC engine.

R + Tidyverse + ggplot2 + brms

The <Tidyverse/brms> conversion is very high quality and complete through Chapter 14.

Python and PyMC3

The <Python/PyMC3> conversion is quite complete.

Julia and Turing

The <Julia/Turing> conversion is not as complete, but is growing fast and presents the Rethinking examples in multiple Julia engines, including the great <TuringLang>.

Other

The are several other conversions. See the full list at https://xcelab.net/rm/statistical-rethinking/.

Homework and solutions

I will also post problem sets and solutions. Check the folders at the top of the repository.

Owner
Richard McElreath
Richard McElreath
Analysis scripts for QG equations

qg-edgeofchaos Analysis scripts for QG equations FIle/Folder Structure eigensolvers.py - Spectral and finite-difference solvers for Rossby wave eigenf

Norman Cao 2 Sep 27, 2022
TE-dependent analysis (tedana) is a Python library for denoising multi-echo functional magnetic resonance imaging (fMRI) data

tedana: TE Dependent ANAlysis TE-dependent analysis (tedana) is a Python library for denoising multi-echo functional magnetic resonance imaging (fMRI)

136 Dec 22, 2022
Flenser is a simple, minimal, automated exploratory data analysis tool.

Flenser Have you ever been handed a dataset you've never seen before? Flenser is a simple, minimal, automated exploratory data analysis tool. It runs

John McCambridge 79 Sep 20, 2022
Driver Analysis with Factors and Forests: An Automated Data Science Tool using Python

Driver Analysis with Factors and Forests: An Automated Data Science Tool using Python 📊

Thomas 2 May 26, 2022
MDAnalysis is a Python library to analyze molecular dynamics simulations.

MDAnalysis Repository README [*] MDAnalysis is a Python library for the analysis of computer simulations of many-body systems at the molecular scale,

MDAnalysis 933 Dec 28, 2022
Kennedy Institute of Rheumatology University of Oxford Project November 2019

TradingBot6M Kennedy Institute of Rheumatology University of Oxford Project November 2019 Run Change api.txt to binance api key: https://www.binance.c

Kannan SAR 2 Nov 16, 2021
Methylation/modified base calling separated from basecalling.

Remora Methylation/modified base calling separated from basecalling. Remora primarily provides an API to call modified bases for basecaller programs s

Oxford Nanopore Technologies 72 Jan 05, 2023
Data cleaning tools for Business analysis

Datacleaning datacleaning tools for Business analysis This program is made for Vicky's work. You can use it, too. 数据清洗 该数据清洗工具是为了商业分析 这个程序是为了Vicky的工作而

Lin Jian 3 Nov 16, 2021
PyNHD is a part of HyRiver software stack that is designed to aid in watershed analysis through web services.

A part of HyRiver software stack that provides access to NHD+ V2 data through NLDI and WaterData web services

Taher Chegini 23 Dec 14, 2022
Zipline, a Pythonic Algorithmic Trading Library

Zipline is a Pythonic algorithmic trading library. It is an event-driven system for backtesting. Zipline is currently used in production as the backte

Quantopian, Inc. 15.7k Jan 07, 2023
BAyesian Model-Building Interface (Bambi) in Python.

Bambi BAyesian Model-Building Interface in Python Overview Bambi is a high-level Bayesian model-building interface written in Python. It's built on to

861 Dec 29, 2022
nrgpy is the Python package for processing NRG Data Files

nrgpy nrgpy is the Python package for processing NRG Data Files Website and source: https://github.com/nrgpy/nrgpy Documentation: https://nrgpy.github

NRG Tech Services 23 Dec 08, 2022
Flexible HDF5 saving/loading and other data science tools from the University of Chicago

deepdish Flexible HDF5 saving/loading and other data science tools from the University of Chicago. This repository also host a Deep Learning blog: htt

UChicago - Department of Computer Science 255 Dec 10, 2022
Python Library for learning (Structure and Parameter) and inference (Statistical and Causal) in Bayesian Networks.

pgmpy pgmpy is a python library for working with Probabilistic Graphical Models. Documentation and list of algorithms supported is at our official sit

pgmpy 2.2k Dec 25, 2022
Pandas on AWS - Easy integration with Athena, Glue, Redshift, Timestream, QuickSight, Chime, CloudWatchLogs, DynamoDB, EMR, SecretManager, PostgreSQL, MySQL, SQLServer and S3 (Parquet, CSV, JSON and EXCEL).

AWS Data Wrangler Pandas on AWS Easy integration with Athena, Glue, Redshift, Timestream, QuickSight, Chime, CloudWatchLogs, DynamoDB, EMR, SecretMana

Amazon Web Services - Labs 3.3k Jan 04, 2023
A Python Tools to imaging the shallow seismic structure

ShallowSeismicImaging Tools to imaging the shallow seismic structure, above 10 km, based on the ZH ratio measured from the ambient seismic noise, and

Xiao Xiao 9 Aug 09, 2022
Hydrogen (or other pure gas phase species) depressurization calculations

HydDown Hydrogen (or other pure gas phase species) depressurization calculations This code is published under an MIT license. Install as simple as: pi

Anders Andreasen 13 Nov 26, 2022
Transform-Invariant Non-Negative Matrix Factorization

Transform-Invariant Non-Negative Matrix Factorization A comprehensive Python package for Non-Negative Matrix Factorization (NMF) with a focus on learn

EMD Group 6 Jul 01, 2022
Python script to automate the plotting and analysis of percentage depth dose and dose profile simulations in TOPAS.

topas-create-graphs A script to automatically plot the results of a topas simulation Works for percentage depth dose (pdd) and dose profiles (dp). Dep

Sebastian Schäfer 10 Dec 08, 2022
Pipeline and Dataset helpers for complex algorithm evaluation.

tpcp - Tiny Pipelines for Complex Problems A generic way to build object-oriented datasets and algorithm pipelines and tools to evaluate them pip inst

Machine Learning and Data Analytics Lab FAU 3 Dec 07, 2022