CODEWITHSUNDEEP
r
Leonardo
Leonardo

Reputation: 129

MatchIt Error: Missing and non-finite values are not allowed in the covariates in R

I face the following barrier.

My csv data look like this:

csv data

I want to use propensity score matching and compare different methods to see which is the optimum one for my data. However, I seem to get an error in the data and I can not figure out why:

Error: Missing and non-finite values are not allowed in the covariates. Covariates with missingness or non-finite values: pat_gender, pat_race, pat_ethnicity

I checked and don't have missing values. I don't understand what it means with "non-finite". I tried to change characters with numbers in the pat_gender, e.g. Male to 1, Female to 0, but I still get the same error. I attach my file to hopefully help.

library(MatchIt)
library(dplyr)
library(optmatch)
 
mydata<- read.csv("C:/Users/Desktop/prp_for_psm_pq.csv")

set.seed(1234)

match.itzs <- matchit(cohort_flag ~ pat_age + pat_gender + pt_hist_in_months + pt_visit_count + pat_race + pat_ethnicity, data = mydata, ratio=1)

df.matchzs <- match.data(match.itzs)[1:ncol(cohort_initial)]

prp_cohort_psm_zs_test <- df.matchzs

Upvotes: 3

Views: 2115

Answers (1)

Jacqueline
Jacqueline

Reputation: 11

I got the code to run by setting the variables to factors, so something like this:

mydata <- mydata %>% mutate(pat_gender = factor(pat_gender))

Upvotes: 1

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