https://github.com/evgenyneu/statistical_rethinking_cmdstanpy
Examples for Statistical Rethinking 2nd edition done in Python/Stan and cmdstanpy.
https://github.com/evgenyneu/statistical_rethinking_cmdstanpy
Last synced: about 2 months ago
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Examples for Statistical Rethinking 2nd edition done in Python/Stan and cmdstanpy.
- Host: GitHub
- URL: https://github.com/evgenyneu/statistical_rethinking_cmdstanpy
- Owner: evgenyneu
- License: unlicense
- Created: 2020-03-28T04:08:05.000Z (about 5 years ago)
- Default Branch: master
- Last Pushed: 2020-03-30T05:03:59.000Z (about 5 years ago)
- Last Synced: 2025-01-10T14:42:40.395Z (3 months ago)
- Language: Python
- Size: 16.6 KB
- Stars: 0
- Watchers: 3
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
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README
# Statistical Rethinking with Python, cmdstanpy and Stan
This repository contains code examples from [Statistical Rethinking](https://xcelab.net/rm/statistical-rethinking/) 2nd edition textbook done with Python and Stan languages. I ran the Stan from Python with cmdstanpy library. I will keep adding new examples to [code/chapters](code/chapters) directory as I march through the textbook.
## Setup
### 1. Download code
Assuming you have [Git](https://git-scm.com) installed, download code of this repository:
```
git clone https://github.com/evgenyneu/statistical_rethinking_cmdstanpy.git
```
Change current directory:
```
cd statistical_rethinking_cmdstanpy
```
### 2. Install miniconda
Install miniconda from Python 3.7 from [here](https://docs.conda.io/en/latest/miniconda.html).
### 3. Create Conda environment
This will install Python 3.7 conda environment called `dopestats`.
```
conda create -n dopestats python=3.7 -c conda-forge
```
### 4. Activate conda environment
Switch to the `dopestats`. You will need to do this every time you want to work with this repository code:
```
conda activate dopestats
```
### 5. Install Python libraries
Install all required libraries. The libraries will be installed inside your active `dopestats` conda environment. This way, it will not pollute your normal Python environment, which may have different versions of the same libraries:
```
pip install -r requirements.txt
```
### 6. Install Stan
Finally, download and install Stan with this command:
```
install_cmdstan
```
### 7. Deactivating Conda environment
This is optional. After you finish working, you can switch back to your normal Python environment:
```
conda deactivate
```
## Run the code
The textbook example are located in separate Python files inside [code/chapters](code/chapters) directory. To run an example, `cd` to the relevant chapter sub-directory and run the script.
For example, change to the second chapter sub-directory:
```
cd code/chapters/ch02
```
And run the script for 2.1 example:
```
python ex02.01.py
```
## Feedback is welcome
If you notice any issue, got stuck or just want to chat feel free to create an issue. I will be happy to help you.
## The unlicense
This work is in [public domain](LICENSE).