Metatranscriptomics Analysis of Microbial Communities
=====================================================

Welcome! This guide walks through end-to-end analysis of metatranscriptomic (mRNA) data from quality control to differential functional activity.

.. toctree::
   :maxdepth: 2
   :numbered:

   01-overview
   02-data-access
   03-qc-and-preproc
   04-rrna-depletion
   05-mapping-vs-assembly
   06-functional-profiling
   07-taxonomic-profiling
   08-differential-analysis
   09-references