.. _troubleshooting:

Troubleshooting
===============

.. toctree::

   install.rst
   common.rst
   bam_pipeline.rst
   phylo_pipeline.rst
   zonkey_pipeline.rst

For troubleshooting of individual pipelines, please see the BAM pipeline :ref:`troubleshooting_bam` section, the Phylo pipeline :ref:`troubleshooting_phylo` section, and the Zonkey pipeline :ref:`troubleshooting_zonkey` section.