epos (version 1.1)

createTanimotoBaseline: Creates the plot for all jaccard coefficients amongst the three epilepsy ontologies

Description

Creates the plot for all jaccard coefficients amongst the three epilepsy ontologies

Usage

createTanimotoBaseline(neuroepso, neuroesso, neuroepi, dneuromaxk)

Value

jaccardepilepsyplot the ggplot object

Arguments

neuroepso

list of neuro drug names co-occurring with epso

neuroesso

list of neuro drug names co-occurring with esso

neuroepi

list of neuro drug names co-occurring with epi

dneuromaxk

object returned from TopKLists::calculate.maxk

Examples

utils::data(rawDrugNamesCoOcEpSO, package="epos")
utils::data(rawDrugNamesCoOcESSO, package="epos")
utils::data(rawDrugNamesCoOcEPILONT, package="epos")
utils::data(rawDrugNamesCoOcEPISEM, package="epos")
atchashda <-
  readAtcMapIntoHashMapDrugNamesAtcCodes(
    system.file("extdata", "db-atc.map", package = "epos"), "\t")
atchashaa <-
  readAtcMapIntoHashMapAtcCodesAtcNames(
    system.file("extdata", "db-atc.map", package = "epos"), "\t")
atchashsec <-
  readSecondLevelATC(
    system.file("extdata", "atc-secondlevel.map", package = "epos"), "\t")
tepso <- rawDrugNamesCoOcEpSO
tesso <- rawDrugNamesCoOcESSO
tepi <- rawDrugNamesCoOcEPILONT
tepisem <- rawDrugNamesCoOcEPISEM
tfenics <- rawDrugNamesCoOcFENICS

neuroepso <- filterNeuroDrugs(tepso, atchashda)
neuroesso <- filterNeuroDrugs(tesso, atchashda)
neuroepi <- filterNeuroDrugs(tepi, atchashda)
neuroepisem <- filterNeuroDrugs(tepisem, atchashda)
neurofenics <- filterNeuroDrugs(tfenics, atchashda)

dneuro <-
  data.frame(EpSO = neuroepso[1:210],
             ESSO = neuroesso[1:210],
             EPILONT = neuroepi[1:210],
             EPISEM = neuroepisem[1:210],
             FENICS = neurofenics[1:210])
dneuromaxk <- TopKLists::calculate.maxK(dneuro, 5, 5, 5)
tanimotobaseline <- createTanimotoBaseline(neuroepso, neuroesso, neuroepi, dneuromaxk)