deeptools package modules
=========================


deeptools.SES_scaleFactor module
--------------------------------

.. automodule:: deeptools.SES_scaleFactor
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deeptools.bamHandler module
---------------------------

.. automodule:: deeptools.bamHandler
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deeptools.correctReadCounts module
----------------------------------

.. automodule:: deeptools.correctReadCounts
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deeptools.correlation module
----------------------------

.. automodule:: deeptools.correlation
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deeptools.correlation_heatmap module
------------------------------------

.. automodule:: deeptools.correlation_heatmap
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deeptools.countReadsPerBin module
---------------------------------

.. automodule:: deeptools.countReadsPerBin
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deeptools.getFragmentAndReadSize module
---------------------------------------

.. automodule:: deeptools.getFragmentAndReadSize
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deeptools.getRatio module
-------------------------

.. automodule:: deeptools.getRatio
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deeptools.getScorePerBigWigBin module
-------------------------------------

.. automodule:: deeptools.getScorePerBigWigBin
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deeptools.heatmapper module
---------------------------

.. automodule:: deeptools.heatmapper
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deeptools.heatmapper_utilities module
-------------------------------------

.. automodule:: deeptools.heatmapper_utilities
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deeptools.mapReduce module
--------------------------

.. automodule:: deeptools.mapReduce
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deeptools.utilities module
--------------------------

.. automodule:: deeptools.utilities
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deeptools.writeBedGraph module
------------------------------

.. automodule:: deeptools.writeBedGraph
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deeptools.writeBedGraph_bam_and_bw module
-----------------------------------------

.. automodule:: deeptools.writeBedGraph_bam_and_bw
    :members:
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    :show-inheritance:


Module contents
---------------

.. automodule:: deeptools
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