Installation

Quick Install

Install citk directly from GitHub:

pip install git+https://github.com/averinpa/citk.git

Development Setup (uv)

uv sync --all-extras

This installs core, docs, dev, and all optional dependency groups declared in pyproject.toml.

Optional Dependency Groups

The 19 shipped tests split across several optional dependency groups; install only what you need.

Tigramite

For cmiknn, cmiknn_mixed, regci:

uv sync --extra tigramite

pycomets (GCM family)

For gcm, wgcm, pcm. The pycomets package depends on xgboost at import time, so the extra installs both:

uv sync --extra pycomets

R-Based Tests

R-backed tests are optional and require:

1. Python package rpy2 (installed via the r extra)

2. The relevant R packages installed in your R environment:

   • RCIT from GitHub ericstrobl/RCIT — for rcit, rcot

   • MXM from CRAN — for ci_mm

   • bnlearn from CRAN — for hartemink_chisq

uv sync --extra r