.gitignore
.readthedocs.yaml
LICENSE
README.md
pyproject.toml
.github/workflows/pypi-release.yml
.github/workflows/testpypi-release.yml
docs/Makefile
docs/api.rst
docs/cli.rst
docs/conf.py
docs/index.rst
docs/make.bat
docs/_static/custom.css
docs/_static/rtd_version.js
docs/modules/combine_states.rst
docs/modules/cutpoints.rst
docs/modules/deepest_ti.rst
docs/modules/expm.rst
docs/modules/get_emission_prob_mat.rst
docs/modules/get_joint_prob_mat.rst
docs/modules/get_trans_emiss.rst
docs/modules/helper_omegas.rst
docs/modules/ncpu.rst
docs/modules/optimizer.rst
docs/modules/read_data.rst
docs/modules/run_markov_chain_AB.rst
docs/modules/run_markov_chain_ABC.rst
docs/modules/trans_mat.rst
docs/modules/vanloan.rst
docs/modules/workflow_optimize.rst
docs/modules/workflow_posterior.rst
docs/modules/workflow_print_example.rst
docs/modules/workflow_viterbi.rst
docs/modules/yaml_helpers.rst
src/itrails/__init__.py
src/itrails/_version.py
src/itrails/combine_states.py
src/itrails/cutpoints.py
src/itrails/deepest_ti.py
src/itrails/expm.py
src/itrails/get_emission_prob_mat.py
src/itrails/get_joint_prob_mat.py
src/itrails/get_trans_emiss.py
src/itrails/helper_omegas.py
src/itrails/ncpu.py
src/itrails/optimizer.py
src/itrails/read_data.py
src/itrails/run_markov_chain_AB.py
src/itrails/run_markov_chain_ABC.py
src/itrails/trans_mat.py
src/itrails/vanloan.py
src/itrails/workflow_optimize.py
src/itrails/workflow_posterior.py
src/itrails/workflow_viterbi.py
src/itrails/yaml_helpers.py
src/itrails.egg-info/PKG-INFO
src/itrails.egg-info/SOURCES.txt
src/itrails.egg-info/dependency_links.txt
src/itrails.egg-info/entry_points.txt
src/itrails.egg-info/requires.txt
src/itrails.egg-info/top_level.txt
src/itrails/examples/example_config.yaml