Tools (:py:mod:`indra.tools`)
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Run assembly components in a pipeline (:py:mod:`indra.tools.assemble_corpus`)
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.. automodule:: indra.tools.assemble_corpus
    :members:

Fix common invalidities in Statements (:py:mod:`indra.tools.fix_invalidities`)
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.. automodule:: indra.tools.fix_invalidities
    :members:

Analyze ontology graph for issues (:py:mod:`indra.tools.analyze_ontology`)
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.. automodule:: indra.tools.analyze_ontology
    :members:

Annotate websites with INDRA through hypothes.is (:py:mod:`indra.tools.hypothesis_annotator`)
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.. automodule:: indra.tools.hypothesis_annotator
    :members:

Build a network from a gene list (:py:mod:`indra.tools.gene_network`)
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.. automodule:: indra.tools.gene_network
    :members:

Build an executable model from a fragment of a large network (:py:mod:`indra.tools.executable_subnetwork`)
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.. automodule:: indra.tools.executable_subnetwork
    :members:

Build a model incrementally over time (:py:mod:`indra.tools.incremental_model`)
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.. automodule:: indra.tools.incremental_model
    :members:

The RAS Machine (:py:mod:`indra.tools.machine`)
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.. automodule:: indra.tools.machine
    :members: