.. _siflex-home:

Siflex
======

**Siflex** — *SIgnal FLow EXploration* — is a Python package for analysing and visualising drug synergy effects on biological signalling networks and pathways. Siflex processes :ref:`Oris <oris-home>` output from the TRAFIKK pipeline to identify and explore synergistic drug combinations through interactive network and pathway visualisations.

Features
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- **Synergy Score Analysis**: Calculate node-level, pathway-level, and drug combination synergy scores
- **Interactive Network Explorer**: Visualise signalling networks with Cytoscape.js across multiple cancer types
- **Pathway Impact Analysis**: Explore KEGG pathway responses to drug combinations
- **Multi-Tissue Support**: Compare drug effects across different cancer tissues and cell lines
- **3+2 Panel Layout**: Three independent network panels and two pathway comparison panels
- **Dual Dashboard Mode**: Run network and pathway explorers simultaneously on different ports

.. toctree::
   :maxdepth: 2
   :hidden:

   Overview <self>
   Installation <installation>
   Usage <usage>
   Configuration <configuration>

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.. raw:: html

   <p style="font-size:0.75rem;color:#999;margin-top:1rem;">Developed by M. Fariñas &amp; V. Bermúdez</p>