.. _documentation-label:
API documentation
=================


PLN models encompass a range of models designed to analyze count data, all
based on the Poisson-Lognormal distribution. Each model has unique
characteristics and serves different purposes. Covariates and offsets may be included in the models.

The `.transform()` method is
available for all models, extracting variables with more signal than the
counts.


Models
======
- :doc:`Pln <pln>` (Poisson-Lognormal)
- :doc:`ZIPln <zipln>` (Zero-Inflated Pln)
- :doc:`PlnPCA <plnpca>` (Dimension reduction)
- :doc:`PlnPCACollection <plnpcacollection>` (Dimension reduction)
- :doc:`PlnAR <plnar>` (AutoRegressive Pln)
- :doc:`PlnLDA <plnlda>` (supervised clustering)
- :doc:`PlnMixture <plnmixture>` (Unsupervised clustering)
- :doc:`PlnNetwork <plnnetwork>` (Network inference)
- :doc:`ZIPlnPCA <ziplnpca>`  (Zero-Inflation and dimension reduction)
- :doc:`PlnDiag <plndiag>` (Diagonal covariance matrix PLN)



.. toctree::
   :maxdepth: 1
   :caption: Sampling PLN data


Indices and tables
==================

* :ref:`genindex`