calcCosine |
Calculate the cosine similarity metric for two lists a and b |
calcDice |
Calculate the dice similarity metric for two lists a and b |
calcJaccard |
Calculate the jaccard coefficient for two lists a and b |
cosine |
Calculate cosine similarity metric |
createBaseTable |
Create the final resulting data frame |
createDashVectorForATC |
Creates a vector with an X at each position where a drug from the druglist matches the ATC class list slatc |
createJaccardPlotDBMeSH |
Creates the plot for all jaccard coefficients amongst the three epilepsy ontologies |
createJaccardPlotMeSHFive |
Creates the plot for all jaccard coefficients amongst the three epilepsy ontologies |
createNeuroTable |
Main function to call everything and produce the results |
createTanimotoBaseline |
Creates the plot for all jaccard coefficients amongst the three epilepsy ontologies |
dice |
Calculate dice similarity metric |
doFullPlot |
Does the full plot on one page |
filterApprovedDrugs |
Filter a given list of drug names for having an ATC code, if not they are dropped |
filterNeuroDrugs |
Filter a given list of drug names for having an ATC code starting with N indicating to be a drug for the Nervous System |
genDictListFromRawFreq |
Clears object that was loaded from harddrive into a list of terms sorted by frequency |
jaccard |
Calculate jaccard similarity metric for two sets a and b |
rawDrugBankCoOcEPILONT |
List of frequency named by drug terms that co-occur with the EPILONT ontology in the corpus of LIVIVO. |
rawDrugBankCoOcEpSO |
List of frequency named by drug terms that co-occur with the EpSO ontology in the corpus of LIVIVO. |
rawDrugBankCoOcESSO |
List of frequency named by drug terms that co-occur with the ESSO ontology in the corpus of LIVIVO. |
readAtcMapIntoHashMapAtcCodesAtcNames |
Processes the input file db-atc.map to form a HashMap containing the drug names with ATC codes |
readAtcMapIntoHashMapDrugNamesAtcCodes |
Processes the input file db-atc.map to form a HashMap containing the drug names with ATC codes |
readSecondLevelATC |
Read the second level ATC classes from the file drugbankatc-secondlevel.map |