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Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquitoes Antonio Rodriguez 1 Frederic Bartumeus 2 , 3 , 4 a 1 Ricard Gavald` Universitat Polit` ecnica de Catalunya, Barcelona (Spain) Centre for Advanced

  1. Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquitoes Antonio Rodriguez 1 Frederic Bartumeus 2 , 3 , 4 a 1 Ricard Gavald` Universitat Polit` ecnica de Catalunya, Barcelona (Spain) Centre for Advanced Studies of Blanes (CEAB-CSIC), 17300 Girona (Spain) CREAF, Cerdanyola del Vall` es, 08193 Barcelona (Spain) ICREA, Pg Llu´ ıs Companys 23, 08010 Barcelona (Spain) Workshop on Data Science for Social Good, SoGood September 2016 Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  2. Overview Introduction 1 Methodology 2 Project development 3 Exploratory data analysis Data cleaning and pre-processing Classifier training, evaluation and selection Real-time classification system design Discussion 4 Future work 5 Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  3. Introduction - Mosquito Alert Citizen Science Platform Mobile application Growing fast Various mosquito species Worldwide localizations Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  4. Introduction - Mobile App Send breeding site Send specimen report Small questionnaire Geolocated! Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  5. Introduction - Mosquito Alert System Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  6. Introduction - Classification system Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  7. Methodology 1 Exploratory data analysis 2 Data cleaning and pre-processing 3 Classifiers training evaluation selection 4 Real-time classification system design Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  8. Exploratory data analysis - Raw files users 16967 observations of 10 variables userID userRegistTimeOriginal userRegistDatetime userRegistDate userRegistMonthNum userRegistMonthString userRegistWeekdayString userRegistWeekdayNum userSyst userDaysSystRelease Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  9. Exploratory data analysis - Raw files reports 10618 observations of 23+1 variables reportVersionID reportCreationMonthNum reportVersionNum reportCreationMonthString userID reportCreationWeekdayString reportID reportCreationWeekdayNum reportType reportLong reportNote reportLat os missionNum hide missionName reportCreationDatetime tiger q1 response reportCreationDate tiger q2 response reportVersionDatetime tiger q3 response reportVersionDate class Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  10. Questionnaire variables Questions Is small, black and has white stripes? Has a white stripe in both head and thorax? Has white stripes in both abdomen and legs? Response values -1 No 0 Not sure 1 Yes Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  11. The class variable -2 The report is definitely not a valid specimen. -1 The report doesn’t seem to be a valid specimen. But it is not sure. 0 There isn’t enough information to classify the report. 1 The report seems to be a valid specimen. But it is not sure. 2 The report is definitely a valid specimen. Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  12. Instance variables Added reportNote reportTimeOfDay. newUser userNumReports Preserved userAccuracy os userTimeForFirstReport reportMonth userTimeSinceLastReport reportQ*Answ (3) userMeanTimeBetweenReports class userNumActionAreas userMobilityIndex reports1kmLast* (4) validReports1kmLast* (4) Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  13. Generated instances 2094 instances from usable reports Class 2 1 − 1 − 2 Frequency 47% 46% 2% 5% Class-imbalanced problem: positive instances over 7 times as frequent as negative ones. Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  14. Studied classifiers Naive Bayes k-nearest neighbors Decision trees Random Forests Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  15. Classifiers - Considerations Most classifiers have trouble dealing with imbalanced classes Merged “unsure” (-1,1) classes into “sure” ones (-2,2) Replication of minority class performed . . . but testing still on original proportion Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  16. Classifiers - Selected classifier Naive Bayes Training conditions: Aggregated instances Positive Negative Replicated (x10) Accuracy 0,380 negatives in training Precision 0,983 0,086 Recall 0,344 0,912 High positive Precision F-measure (F1) 0,51 0,157 High negative Recall Table: Evaluation metrics, Naive Bayes can detect approximately 1 third of the valid reports with a precision near 98% Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  17. ROC curve and variable importance Variable name Importance reportQ2Answ 0.7424 reportQ3Answ 0.7038 reports1kmLastMonth 0.6623 reportQ1Answ 0.6615 userNumReports 0.6405 userNumActionAreas 0.6348 validReports1kmLastMonth 0.6216 userTimeForFirstReport 0.6197 reports1kmLastWeek 0.6158 userAccuracy 0.6085 Table: Variable importance in the NB classifier. Numbers are the values of the model coefficients after standarization. Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

  18. Real-time classification system design Two subsystems: Instance generation system Instance creation script Environment Classification system Training script Classifier Classification script Workshop on Data Science for Social Good, SoGo Antonio Rodriguez, Frederic Bartumeus, Ricard Gavald` Machine Learning Assists the Classification of Reports by Citizens on Disease-Carrying Mosquito a (Universitat Polit` ecnica de Catalunya, Barcelona (Spain), Centre for Advanced Studies / 20

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