INDRA
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  • License and funding
  • Installation
  • Getting started with INDRA
  • INDRA modules reference
    • INDRA Statements (indra.statements)
    • Processors for knowledge input (indra.sources)
    • Database clients (indra.databases)
    • Literature clients (indra.literature)
    • INDRA Ontologies (indra.ontology)
    • Preassembly (indra.preassembler)
    • Belief prediction (indra.belief)
    • Mechanism Linker (indra.mechlinker)
    • Assemblers of model output (indra.assemblers)
      • Executable PySB models (indra.assemblers.pysb.assembler)
      • Cytoscape networks (indra.assemblers.cx.assembler)
      • Natural language (indra.assemblers.english.assembler)
      • Node-edge graphs (indra.assemblers.graph.assembler)
      • SIF / Boolean networks (indra.assemblers.sif.assembler)
      • MITRE “index cards” (indra.assemblers.index_card.assembler)
      • SBGN output (indra.assemblers.sbgn.assembler)
      • Cytoscape JS networks (indra.assemblers.cyjs.assembler)
      • Tabular output (indra.assemblers.tsv.assembler)
      • HTML browsing and curation (indra.assemblers.html.assembler)
      • BMI wrapper for PySB-assembled models (indra.assemblers.pysb.bmi_wrapper)
      • PyBEL graphs (indra.assemblers.pybel.assembler)
      • Kami models (indra.assemblers.kami.assembler)
      • IndraNet Graphs (indra.assemblers.indranet)
    • Explanation (indra.explanation)
    • Assembly Pipeline (indra.pipeline)
    • Tools (indra.tools)
    • Resource files
    • Util (indra.util)
  • Tutorials
  • REST API
INDRA
  • Docs »
  • INDRA modules reference »
  • Assemblers of model output (indra.assemblers)
  • Edit on GitHub

Assemblers of model output (indra.assemblers)¶

  • Executable PySB models (indra.assemblers.pysb.assembler)
    • PySB Assembler (indra.assemblers.pysb.assembler)
    • PySB PreAssembler (indra.assemblers.pysb.preassembler)
    • Base Agents (indra.assemblers.pysb.base_agents)
    • A utility to get graphs from kappa (indra.assemblers.pysb.kappa_util)
  • Cytoscape networks (indra.assemblers.cx.assembler)
  • Natural language (indra.assemblers.english.assembler)
  • Node-edge graphs (indra.assemblers.graph.assembler)
  • SIF / Boolean networks (indra.assemblers.sif.assembler)
  • MITRE “index cards” (indra.assemblers.index_card.assembler)
  • SBGN output (indra.assemblers.sbgn.assembler)
  • Cytoscape JS networks (indra.assemblers.cyjs.assembler)
  • Tabular output (indra.assemblers.tsv.assembler)
  • HTML browsing and curation (indra.assemblers.html.assembler)
  • BMI wrapper for PySB-assembled models (indra.assemblers.pysb.bmi_wrapper)
  • PyBEL graphs (indra.assemblers.pybel.assembler)
  • Kami models (indra.assemblers.kami.assembler)
  • IndraNet Graphs (indra.assemblers.indranet)
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© Copyright 2021, B. M. Gyori, J. A. Bachman Revision 1a63a315.

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