pyMeSHSim
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Contents:

  • Introduction
  • Installation
  • Tutorial
  • Library reference
pyMeSHSim
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  • Welcome to pyMeSHSim’s documentation!
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Welcome to pyMeSHSim’s documentation!¶

Contents:

  • Introduction
    • pyMeSHSim at glance
      • Biomedical named entity (Bio-NE) recognition, normalization, and comparison
      • MeSH
      • pyMeSHSim
      • Currently, pyMeSHSim consists of three subpackages:
      • Download
  • Installation
    • Requirements
    • MetaMap installation
    • Installation of pandas and bcolz
    • Installation of pyMeSHSim
  • Tutorial
    • Important parameters introduction
      • MetamapWrap
      • Data
      • Sim
    • pipeline script
    • Parsing free text
      • Parsing short sentence
      • Parsing long sentence
      • Filtering the result
    • Term library
      • Obtaining MeSH terms from UMLS concepts
      • Obtaining MeSH term detail from MeSH ID
      • Obtaining UMLS concept from MeSH ID
      • Obtaining the category of MeSH terms
      • Obtaining narrow or broad terms of a mesh term
      • Obtaining parent or child terms of a MeSH term
      • Obtaining the top term of a MeSH term
      • Obtaining the ancestors or offsprings
      • Retrieving MeSH ID by MeSH tree code
      • Obtaining the preffered name by MeSH ID
    • Calculating similarity
      • Calculating similarity between MeSH terms
  • Library reference
    • data
      • pyMeSHSim.data.createData
      • pyMeSHSim.data.dataInterface
      • pyMeSHSim.data.duiFunc
    • metamapWrap
      • pyMeSHSim.metamapWrap.Concept
      • pyMeSHSim.metamapWrap.MetamapInterface
    • Sim
      • pyMeSHSim.Sim.ICScore
      • pyMeSHSim.Sim.PathScore
      • pyMeSHSim.Sim.MeSHProcess
      • pyMeSHSim.Sim.similarity

Indices and tables¶

  • Index
  • Module Index
  • Search Page
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© Copyright 2018, Zhihui Luo Revision 7771d294.

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