Man pages for ZBMEDLABS/epilepsyontologysimilarities
Epilepsy Ontology Similarities
| aggregatedPlotDrugBank | Create aggregated plot with mean and standard deviation of... |
| aggregatedPlotEpilepsie | Create a plot object that aggregates cosine, dice, and... |
| aggregatedPlotMeSH | Create aggregated plot with mean and standard deviation of... |
| 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 |
| countATC | Count the ATC second level classes for all drug names in the... |
| createATCBarChart | Creates a plot object for a given sorted hashmap. |
| createBaseTable | Create the final resulting data frame |
| createCosineFrameDrugBank | Creates data frame for plotting the cosine coefficients... |
| createCosineFrameEpSO | Creates data frame for plotting the cosine coefficients... |
| createCosineFrameESSO | Creates data frame for plotting the cosine coefficients... |
| createCosineFrameMeSH | Creates data frame for plotting the cosine coefficients... |
| createCosinePlotAll | Creates the plot for all cosine coefficients against drugbank |
| createCosinePlotDrugBank | Creates the plot for all cosine coefficients against drugbank |
| createCosinePlotMeSH | Creates the plot for all cosine coefficients against mesh |
| createDashVectorForATC | Creates a vector with an X at each position where a drug from... |
| createDiceFrameDrugBank | Creates data frame for plotting the dice coefficients against... |
| createDiceFrameEpSO | Creates data frame for plotting the dice coefficients against... |
| createDiceFrameESSO | Creates data frame for plotting the dice coefficients against... |
| createDiceFrameMeSH | Creates data frame for plotting the dice coefficients against... |
| createDicePlotAll | Creates the plot for all dice coefficients amongst the three... |
| createDicePlotDrugBank | Creates the plot for all dice coefficients against drugbank |
| createDicePlotMeSH | Creates the plot for all dice coefficients against mesh |
| createJaccardFrameDrugBank | Creates data frame for plotting the jaccard coefficients... |
| createJaccardFrameEpSO | Creates data frame for plotting the jaccard coefficients... |
| createJaccardFrameESSO | Creates data frame for plotting the jaccard coefficients... |
| createJaccardFrameMeSH | Creates data frame for plotting the jaccard coefficients... |
| createJaccardPlotAll | Creates the plot for all jaccard coefficients amongst the... |
| createJaccardPlotDBMeSH | Creates the plot for all jaccard coefficients amongst the... |
| createJaccardPlotDrugBank | Creates the plot for all jaccard coefficients against... |
| createJaccardPlotMeSH | Creates the plot for all jaccard coefficients against mesh |
| createJaccardPlotMeSHFive | Creates the plot for all jaccard coefficients amongst the... |
| createListFromVennVector | Creates a list out of a vector |
| create_metrics | Calculate required metrics for the aggregated plots against... |
| create_stats | Calculate data.frame containing stats for mean, median, and... |
| createTanimotoBaseline | Creates the plot for all jaccard coefficients amongst the... |
| dice | Calculate dice similarity metric |
| doFullPlot | Does the full plot on one page |
| drawVennPlot | Draw venn diagram with example values |
| filterApprovedDrugs | Filter a given list of drug names for having an ATC code, if... |
| filterNeuroDrugs | Filter a given list of drug names for having an ATC code... |
| genDictListFromRawFreq | Clears object that was loaded from harddrive into a list of... |
| getTermMatrix | Receives a sorted hashmap with found entities from a... |
| jaccard | Calculate jaccard similarity metric for two sets a and b |
| loadDrugBank | Loads drugbank object from harddrive into the R environment |
| loadEPILONT | Loads epilont object from harddrive into the R environment |
| loadEpSO | Loads epso object from harddrive into the R environment |
| loadESSO | Loads esso object from harddrive into the R environment |
| loadMeSH | Loads mesh object from harddrive into the R environment |
| main | Main function to call everything and produce the results |
| readAtcMapIntoHashMapAtcCodesAtcNames | Processes the input file db-atc.map to form a HashMap... |
| readAtcMapIntoHashMapDrugNamesAtcCodes | Processes the input file db-atc.map to form a HashMap... |
| readSecondLevelATC | Read the second level ATC classes from the file... |
| readThirdLevelATC | Read the third level ATC classes from the file... |
| sortHashMapByValue | Sort a hashmap by its values |
