.. _programs:

=======================================
Programs
=======================================
All programs which can be run through the sortseq_tools package.

Main Programs:
------------------
.. toctree::
   :maxdepth: 1

   simulate_library
   profile_counts
   profile_freqs
   profile_enrichment
   profile_mutrates
   profile_info
   fromto_mutrate
   learn_model
   totalinfo
   predictiveinfo
   simulate_sublibrary
   simulate_evaluate
   simulate_sort
   simulate_selection
   simulate_expression
   gatherseqs
   logratios
   errfromtags
   convertseqs
   compare_predictive_information
   draw
   pairwise_mutrate
   preprocess

Supplementary Programs:
---------------------

.. toctree:
   :maxdepth: 1
   BIC_selection
   convert_fastq_to_seqs
   select_window