TRAPT package
=============

November 15, 2024

**Title** TRAPT: A multi-stage fused deep learning framework for transcriptional 
regulators prediction via integrating large-scale epigenomic data

**Maintainer** Guorui Zhang <mp798378522@gmail.com>

**Description** TRAPT is a multi-omics integration framework designed 
for inferring transcriptional regulator activity from a set of query genes. 
TRAPT employs a multi-stage fusion strategy to address the issues 
of incomplete cis-regulatory profile coverage and TRBP problems. 
By leveraging two-stage self-knowledge distillation to extract the activity 
embedding of regulatory elements, TRAPT can predicts key regulatory 
factors for sets of query genes through a fusion strategy.

TRAPT.CalcSampleRPMatrix module
-------------------------------

.. automodule:: TRAPT.CalcSampleRPMatrix
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TRAPT.CalcTRAUC module
----------------------

.. automodule:: TRAPT.CalcTRAUC
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TRAPT.CalcTRRPMatrix module
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.. automodule:: TRAPT.CalcTRRPMatrix
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TRAPT.CalcTRSampleRPMatrix module
---------------------------------

.. automodule:: TRAPT.CalcTRSampleRPMatrix
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TRAPT.DLFS module
-----------------

.. automodule:: TRAPT.DLFS
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TRAPT.DLVGAE module
-------------------

.. automodule:: TRAPT.DLVGAE
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TRAPT.Run module
----------------

.. automodule:: TRAPT.Run
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TRAPT.Tools module
------------------

.. automodule:: TRAPT.Tools
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Module contents
---------------

.. automodule:: TRAPT
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