createTransactions: Convert events into transactions.

In novasmedley/gbmSpm: Find predictive sequential patterns for clinical glioblastoma patients

Description

Convert events into transactions.

Usage

createTransactions(event, filename)

Arguments

event	dataframe of events, where rows are single events, and least the following columns: iois patient id eventID event id, see resetEventIDsToDays eventName unique event name, see createEventNames
filename	path to save transactions file

Details

Creates a transaction file with the following 'n' columns:

• column 1: sequenceID

• column 2: timeStamp/eventID

• column 3 = number of items

• columns 4-n = items in event

Transaction file is to be read by read_baskets.

Examples

data("fake_data")
outputDir <- '~/test'

# save tumor location and laterility strings before event cleaning
fake_tumorInfo <- fake_data$events 
fake_demo <- fake_data$demo

# clean data
fake_data$events <- cleanData(fake_data$events, tType = 'rate')
cat('...',nrow(fake_data$events), " events left for SPM after cleaning", '\n')

# collect patient info for each event
fake_data <- merge(fake_data$events, fake_data$person, by='iois', all.x=T) 

# prep for each event, since age does change
# get survival labels, these also change
fake_data <- prepDemographics(fake_data, fake_demo) 
fake_data <- prepSurvivalLabels(fake_data) 

# get first tumor location
fake_data <- getTumorLocation(fake_data, fake_tumorInfo) 

# transactions
trans <- createTransactions(event = fake_data, 
                            filename = file.path(outputDir, 'example_transactions.txt'))

novasmedley/gbmSpm documentation built on May 17, 2019, 10:39 a.m.