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RDC_publish.R
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# Analysis Script that was run at the National Center for Health Statistics
# Restricted Data Center
# WRITTEN IN R VERSION: R version 4.0.3 (2020-10-10)
library(tidyverse)
library(stringr)
library(survey)
library(broom)
library(quantreg)
library(haven)
options(stringsAsFactors = FALSE)
options(scipen = 999)
# Set the working directory
setwd('C:/Researcher Proposal/Robinson_Dodson_1886/Dodson_update_file/Output')
##########################################################################################
##########################################################################################
### General Functions
##########################################################################################
# Function to make a regression formula
make_formula <- function(front, back) {
return(str_c(front, back))
}
##########################################################################################
##########################################################################################
### Load the data and create additional variables needed for analysis
##########################################################################################
# Number of variables should be 293 = 274 (original public dataset) + 2 (CA, chem_law) + 13 (P65 indicators) + 1 (ExamYEAR) + survey design parameters (2) + SDSSRVYR
# Number of observations should be 92,062
# We can read in everything as numeric except cycle, race_cat, PIR_cat
#Read in analytic dataset from the RDC as a .csv
bd <- read_csv("nhanes_final_file.csv", col_types = cols(
cycle=col_character(),
race_cat=col_character(),
PIR_cat=col_character(),
.default=col_double())
)
stopifnot(nrow(bd)==92062)
stopifnot(ncol(bd)==293)
str(bd)
bd <- bd %>%
rename(LBXPFNA=LBXPF,
PFNA_high=PF_high,
ln_PFNA=ln_PF)
# Data Checks
summary(bd$URXMHH)
# results should be 0.14, 5.96, 13.70, 41.54, 31.80, 9326.10, NAs=70625
summary(bd$weight14_phenols)
# results should be 654.1, 5569.3, 9951.6, 14911.5, 18881.3, 124948.3, NAs=73426
summary(bd$P02_cr)
#results should be 0.01, 1.78, 3.38, 6.20, 7.21, 404.57, NAs=73885
summary(bd$ln_VTO)
#results should be -4.03, -3.02, -2.50, -2.30, -1.71, 4.03, NAs=75328
summary(bd$ln_MAD)
# results should be 2.14, 4.28, 4.89, 4.83, 5.41, 11.24, NAs=80717
# need to check if ExamYEAR has been adjusted to account for people whose exam date falls outside of their survey cycle
# Year of examination values need to be recoded such that all participants belonging to the same PSU have the same year
# of examination value. "The year of examination values different from the survey year should be recoded to the survey
# year. "Survey year" herein means: the first year of a given two-year survey cycle for the first 15 PSUs; and the
# second year of a given two-year survey cycle for the last 15 PSUs.
table(bd$cycle, bd$ExamYEAR)
table(bd$cycle, bd$SDSSRVYR)
# Yes, we need to adjust ExamYEAR
bd <- bd %>%
select(-ExamYEAR) %>%
rename(ExamYEAR=SDSSRVYR)
table(bd$cycle, bd$ExamYEAR)
# Set up factor variables
bd <- bd %>%
mutate(race_cat=factor(race_cat, levels=c("Non-Hispanic White", "Hispanic", "Non-Hispanic Black", "Other")),
PIR_cat=factor(PIR_cat, levels=c("middle","low","high")))
#checks on the factor variables:
table(bd$race_cat)
# race_cat should be 34282 Non-Hispanic White, 28556 Hispanic, 21529 Non-Hispanic Black, 7695 Other
table(bd$PIR_cat)
#PIR_cat should be 35005 middle, 23001 low, 26091 high
bd <- bd %>%
mutate(Y2000=ifelse(ExamYEAR==2000, 1, 0),
Y2001=ifelse(ExamYEAR==2001, 1, 0),
Y2002=ifelse(ExamYEAR==2002, 1, 0),
Y2003=ifelse(ExamYEAR==2003, 1, 0),
Y2004=ifelse(ExamYEAR==2004, 1, 0),
Y2005=ifelse(ExamYEAR==2005, 1, 0),
Y2006=ifelse(ExamYEAR==2006, 1, 0),
Y2007=ifelse(ExamYEAR==2007, 1, 0),
Y2008=ifelse(ExamYEAR==2008, 1, 0),
Y2009=ifelse(ExamYEAR==2009, 1, 0),
Y2010=ifelse(ExamYEAR==2010, 1, 0),
Y2011=ifelse(ExamYEAR==2011, 1, 0),
Y2012=ifelse(ExamYEAR==2012, 1, 0),
Y2013=ifelse(ExamYEAR==2013, 1, 0),
Y2014=ifelse(ExamYEAR==2014, 1, 0),
Y2015=ifelse(ExamYEAR==2015, 1, 0),
Y2016=ifelse(ExamYEAR==2016, 1, 0))
bd <- bd %>%
mutate(time=ExamYEAR-1998)
stopifnot(max(bd$time)==18)
bd <- bd %>%
mutate(P65_URXMZP_CA=P65_URXMZP*CA,
P65_URXMBP_CA=P65_URXMBP*CA,
P65_URXCNP_CA=P65_URXCNP*CA,
P65_URXMHH_CA=P65_URXMHH*CA,
P65_URXCOP_CA=P65_URXCOP*CA,
P65_URXBPH_CA=P65_URXBPH*CA,
P65_URXAAM_CA=P65_URXAAM*CA,
P65_URXATC_CA=P65_URXATC*CA,
P65_URXBMA_CA=P65_URXBMA*CA,
P65_LBXVCF_CA=P65_LBXVCF*CA,
P65_LBXVTO_CA=P65_LBXVTO*CA,
P65_URXP01_CA=P65_URXP01*CA,
P65_URXP02_CA=P65_URXP02*CA,
P65_URXMZP_time=P65_URXMZP*time,
P65_URXMBP_time=P65_URXMBP*time,
P65_URXCNP_time=P65_URXCNP*time,
P65_URXMHH_time=P65_URXMHH*time,
P65_URXCOP_time=P65_URXCOP*time,
P65_URXBPH_time=P65_URXBPH*time,
P65_URXAAM_time=P65_URXAAM*time,
P65_URXATC_time=P65_URXATC*time,
P65_URXBMA_time=P65_URXBMA*time,
P65_LBXVCF_time=P65_LBXVCF*time,
P65_LBXVTO_time=P65_LBXVTO*time,
P65_URXP01_time=P65_URXP01*time,
P65_URXP02_time=P65_URXP02*time,
CA_time=CA*time)
##########################################################################################
##########################################################################################
### Create survey designs
##########################################################################################
# 18-year phthalates
phthalates18 <- bd %>%
filter(is.na(weight18_phthalates)==0)
phthalates18_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight18_phthalates,
nest = TRUE,
data = phthalates18)
# 16-year phthalates
phthalates16 <- bd %>%
filter(is.na(weight16_phthalates)==0)
phthalates16_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight16_phthalates,
nest = TRUE,
data = phthalates16)
# 12-year phthalates
phthalates12 <- bd %>%
filter(is.na(weight12_phthalates)==0)
phthalates12_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight12_phthalates,
nest = TRUE,
data = phthalates12)
#check
stopifnot(nrow(phthalates18)>nrow(phthalates16))
stopifnot(nrow(phthalates16)>nrow(phthalates12))
# 14 year phenols
phenols14 <- bd %>%
filter(is.na(weight14_phenols)==0)
phenols14_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight14_phenols,
nest = TRUE,
data = phenols14)
# 12 year phenols
phenols12 <- bd %>%
filter(is.na(weight12_phenols)==0)
phenols12_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight12_phenols,
nest = TRUE,
data = phenols12)
# 4 year phenols
phenols4 <- bd %>%
filter(is.na(weight4_phenols)==0)
phenols4_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight4_phenols,
nest = TRUE,
data = phenols4)
#check
stopifnot(nrow(phenols14)>nrow(phenols12))
stopifnot(nrow(phenols12)>nrow(phenols4))
# VOCs in urine
urineVOC8 <- bd %>%
filter(is.na(weight8_urineVOC)==0)
urineVOC8_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight8_urineVOC,
nest = TRUE,
data = urineVOC8)
# 18 year blood VOCs
bloodVOC18 <- bd %>%
filter(is.na(weight18_bloodVOC)==0) %>%
filter(is.na(T_VPSU)==0)
bloodVOC18_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight18_bloodVOC,
nest = TRUE,
data = bloodVOC18)
# 16 year blood VOCs
bloodVOC16 <- bd %>%
filter(is.na(weight16_bloodVOC)==0)
bloodVOC16_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight16_bloodVOC,
nest = TRUE,
data = bloodVOC16)
#check
stopifnot(nrow(bloodVOC18)>nrow(bloodVOC16))
# 14 year PAHs
PAH14 <- bd %>%
filter(is.na(weight14_PAH)==0)
PAH14_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight14_PAH,
nest = TRUE,
data = PAH14)
# 12 year PAHs
PAH12 <- bd %>%
filter(is.na(weight12_PAH)==0)
PAH12_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight12_PAH,
nest = TRUE,
data = PAH12)
# 10 year PAHs
PAH10 <- bd %>%
filter(is.na(weight10_PAH)==0)
PAH10_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight10_PAH,
nest = TRUE,
data = PAH10)
# 6 year PAHs
PAH6 <- bd %>%
filter(is.na(weight6_PAH)==0)
PAH6_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight6_PAH,
nest = TRUE,
data = PAH6)
#check
stopifnot(nrow(PAH14)>nrow(PAH12))
stopifnot(nrow(PAH12)>nrow(PAH10))
stopifnot(nrow(PAH10)>nrow(PAH6))
#PFAS - only 14-year weights
pfas14 <- bd %>%
filter(is.na(weight14_pfas)==0)
pfas14_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight14_pfas,
nest = TRUE,
data = pfas14)
#Lead/Mercury
lead_merc18 <- bd %>%
filter(is.na(weight18_lead_mercury)==0)
lead_merc18_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight18_lead_mercury,
nest = TRUE,
data = lead_merc18)
#Cadmium
cadmium18 <- bd %>%
filter(is.na(weight18_cadmium)==0)
cadmium18_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight18_cadmium,
nest = TRUE,
data = cadmium18)
#Overall
bd_design <-svydesign(id = ~T_VPSU,
strata = ~T_VSTRAT,
weights = ~weight18_MEC,
nest = TRUE,
data = bd)
##########################################################################################
##########################################################################################
### Output Table 8 - Regression Output from OLS Models II.a-c
##########################################################################################
# Use a loop to run the svyglm continuous regressions for the Prop 65 regressions and then do the joint tests on the coefficients
# Note on the test output - to get the Working 2logLR statistic that is reported if you run regTermTest in the console,
# take the chisq statistic reported in the test output, and divide by the average of the lambdas (eigenvalues)
# reported in the test output.
OLS_II_formulas <- c(
"ln_MZP ~ P65_URXMZP + female + child + wcba + race_cat + PIR_cat",
"ln_MZP ~ P65_URXMZP + CA + P65_URXMZP_CA + female + child + wcba + race_cat + PIR_cat",
"ln_MZP ~ P65_URXMZP + CA + P65_URXMZP_CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_MZP ~ P65_URXMZP + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MZP ~ P65_URXMZP + CA + P65_URXMZP_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MZP ~ P65_URXMZP + CA + P65_URXMZP_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MBP ~ P65_URXMBP + female + child + wcba + race_cat + PIR_cat",
"ln_MBP ~ P65_URXMBP + CA + P65_URXMBP_CA + female + child + wcba + race_cat + PIR_cat",
"ln_MBP ~ P65_URXMBP + CA + P65_URXMBP_CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_MBP ~ P65_URXMBP + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MBP ~ P65_URXMBP + CA + P65_URXMBP_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MBP ~ P65_URXMBP + CA + P65_URXMBP_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MEP ~ female + child + wcba + race_cat + PIR_cat",
"ln_MEP ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_MEP ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_MEP ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MEP ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MEP ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MIB ~ female + child + wcba + race_cat + PIR_cat",
"ln_MIB ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_MIB ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_MIB ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MIB ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MIB ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MHH ~ P65_URXMHH + female + child + wcba + race_cat + PIR_cat",
"ln_MHH ~ P65_URXMHH + CA + P65_URXMHH_CA + female + child + wcba + race_cat + PIR_cat",
"ln_MHH ~ P65_URXMHH + CA + P65_URXMHH_CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_MHH ~ P65_URXMHH + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MHH ~ P65_URXMHH + CA + P65_URXMHH_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MHH ~ P65_URXMHH + CA + P65_URXMHH_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_CNP ~ P65_URXCNP + female + child + wcba + race_cat + PIR_cat",
"ln_CNP ~ P65_URXCNP + CA + P65_URXCNP_CA + female + child + wcba + race_cat + PIR_cat",
"ln_CNP ~ P65_URXCNP + CA + P65_URXCNP_CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_CNP ~ P65_URXCNP + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_CNP ~ P65_URXCNP + CA + P65_URXCNP_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_CNP ~ P65_URXCNP + CA + P65_URXCNP_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_COP ~ P65_URXCOP + female + child + wcba + race_cat + PIR_cat",
"ln_COP ~ P65_URXCOP + CA + P65_URXCOP_CA + female + child + wcba + race_cat + PIR_cat",
"ln_COP ~ P65_URXCOP + CA + P65_URXCOP_CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_COP ~ P65_URXCOP + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_COP ~ P65_URXCOP + CA + P65_URXCOP_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_COP ~ P65_URXCOP + CA + P65_URXCOP_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_BPH ~ P65_URXBPH + female + child + wcba + race_cat + PIR_cat",
"ln_BPH ~ P65_URXBPH + CA + P65_URXBPH_CA + female + child + wcba + race_cat + PIR_cat",
"ln_BPH ~ P65_URXBPH + CA + P65_URXBPH_CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_BPH ~ P65_URXBPH + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_BPH ~ P65_URXBPH + CA + P65_URXBPH_CA + female + child + wcba + race_cat + PIR_cat+ln_UCR",
"ln_BPH ~ P65_URXBPH + CA + P65_URXBPH_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_BP3 ~ female + child + wcba + race_cat + PIR_cat",
"ln_BP3 ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_BP3 ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_BP3 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_BP3 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_BP3 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_TRS ~ female + child + wcba + race_cat + PIR_cat",
"ln_TRS ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_TRS ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_TRS ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_TRS ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_TRS ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_14D ~ female + child + wcba + race_cat + PIR_cat",
"ln_14D ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_14D ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_14D ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_14D ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_14D ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_DCB ~ female + child + wcba + race_cat + PIR_cat",
"ln_DCB ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_DCB ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_DCB ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_DCB ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_DCB ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MPB ~ female + child + wcba + race_cat + PIR_cat",
"ln_MPB ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_MPB ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_MPB ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MPB ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MPB ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_PPB ~ female + child + wcba + race_cat + PIR_cat",
"ln_PPB ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_PPB ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_PPB ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_PPB ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_PPB ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_BPS ~ female + child + wcba + race_cat + PIR_cat",
"ln_BPS ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_BPS ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_BPS ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_BPS ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_BPS ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_2MH ~ female + child + wcba + race_cat + PIR_cat",
"ln_2MH ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_2MH ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_2MH ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_2MH ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_2MH ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_2MH ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_2MH ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_2MH ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_2MH ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_2MH ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_2MH ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_34M ~ female + child + wcba + race_cat + PIR_cat",
"ln_34M ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_34M ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_34M ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_34M ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_34M ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_34M ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_34M ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_34M ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_34M ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_34M ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_34M ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_AAM ~ P65_URXAAM + female + child + wcba + race_cat + PIR_cat",
"ln_AAM ~ P65_URXAAM + CA + P65_URXAAM_CA + female + child + wcba + race_cat + PIR_cat",
"ln_AAM ~ P65_URXAAM + CA + P65_URXAAM_CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_AAM ~ P65_URXAAM + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_AAM ~ P65_URXAAM + CA + P65_URXAAM_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_AAM ~ P65_URXAAM + CA + P65_URXAAM_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_AAM ~ P65_URXAAM + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_AAM ~ P65_URXAAM + CA + P65_URXAAM_CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_AAM ~ P65_URXAAM + CA + P65_URXAAM_CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_AAM ~ P65_URXAAM + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_AAM ~ P65_URXAAM + CA + P65_URXAAM_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_AAM ~ P65_URXAAM + CA + P65_URXAAM_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_ATC ~ P65_URXATC + female + child + wcba + race_cat + PIR_cat",
"ln_ATC ~ P65_URXATC + CA + P65_URXATC_CA + female + child + wcba + race_cat + PIR_cat",
"ln_ATC ~ P65_URXATC + CA + P65_URXATC_CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_ATC ~ P65_URXATC + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_ATC ~ P65_URXATC + CA + P65_URXATC_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_ATC ~ P65_URXATC + CA + P65_URXATC_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_ATC ~ P65_URXATC + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_ATC ~ P65_URXATC + CA + P65_URXATC_CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_ATC ~ P65_URXATC + CA + P65_URXATC_CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_ATC ~ P65_URXATC + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_ATC ~ P65_URXATC + CA + P65_URXATC_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_ATC ~ P65_URXATC + CA + P65_URXATC_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_BMA ~ P65_URXBMA + female + child + wcba + race_cat + PIR_cat",
"ln_BMA ~ P65_URXBMA + CA + P65_URXBMA_CA + female + child + wcba + race_cat + PIR_cat",
"ln_BMA ~ P65_URXBMA + CA + P65_URXBMA_CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_BMA ~ P65_URXBMA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_BMA ~ P65_URXBMA + CA + P65_URXBMA_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_BMA ~ P65_URXBMA + CA + P65_URXBMA_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_BMA ~ P65_URXBMA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_BMA ~ P65_URXBMA + CA + P65_URXBMA_CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_BMA ~ P65_URXBMA + CA + P65_URXBMA_CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_BMA ~ P65_URXBMA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_BMA ~ P65_URXBMA + CA + P65_URXBMA_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_BMA ~ P65_URXBMA + CA + P65_URXBMA_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_CYM ~ female + child + wcba + race_cat + PIR_cat",
"ln_CYM ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_CYM ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_CYM ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_CYM ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_CYM ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_CYM ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_CYM ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_CYM ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_CYM ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_CYM ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_CYM ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_DHB ~ female + child + wcba + race_cat + PIR_cat",
"ln_DHB ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_DHB ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_DHB ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_DHB ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_DHB ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_DHB ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_DHB ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_DHB ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_DHB ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_DHB ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_DHB ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_HP2 ~ female + child + wcba + race_cat + PIR_cat",
"ln_HP2 ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_HP2 ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_HP2 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_HP2 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_HP2 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_HP2 ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_HP2 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_HP2 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_HP2 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_HP2 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_HP2 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_MAD ~ female + child + wcba + race_cat + PIR_cat",
"ln_MAD ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_MAD ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_MAD ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MAD ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MAD ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MAD ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_MAD ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_MAD ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_MAD ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_MAD ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_MAD ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_MB3 ~ female + child + wcba + race_cat + PIR_cat",
"ln_MB3 ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_MB3 ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_MB3 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MB3 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MB3 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MB3 ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_MB3 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_MB3 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_MB3 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_MB3 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_MB3 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_VCF ~ P65_LBXVCF + female + wcba + race_cat + PIR_cat",
"ln_VCF ~ P65_LBXVCF + CA + P65_LBXVCF_CA + female + wcba + race_cat + PIR_cat",
"ln_VCF ~ P65_LBXVCF + CA + P65_LBXVCF_CA + time + female + wcba + race_cat + PIR_cat",
"ln_VTO ~ P65_LBXVTO + female + wcba + race_cat + PIR_cat",
"ln_VTO ~ P65_LBXVTO + CA + P65_LBXVTO_CA + female + wcba + race_cat + PIR_cat",
"ln_VTO ~ P65_LBXVTO + CA + P65_LBXVTO_CA +time + female + wcba + race_cat + PIR_cat",
"ln_VTO ~ P65_LBXVTO + female + wcba + race_cat + PIR_cat + ln_COT",
"ln_VTO ~ P65_LBXVTO + CA + P65_LBXVTO_CA + female + wcba + race_cat + PIR_cat + ln_COT",
"ln_VTO ~ P65_LBXVTO + CA + P65_LBXVTO_CA +time + female + wcba + race_cat + PIR_cat + ln_COT",
"ln_P01 ~ P65_URXP01 + female + child + wcba + race_cat + PIR_cat",
"ln_P01 ~ P65_URXP01 + CA + P65_URXP01_CA + female + child + wcba + race_cat + PIR_cat",
"ln_P01 ~ P65_URXP01 + CA + P65_URXP01_CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_P01 ~ P65_URXP01 + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P01 ~ P65_URXP01 + CA + P65_URXP01_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P01 ~ P65_URXP01 + CA + P65_URXP01_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P01 ~ P65_URXP01 + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P01 ~ P65_URXP01 + CA + P65_URXP01_CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P01 ~ P65_URXP01 + CA + P65_URXP01_CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P01 ~ P65_URXP01 + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P01 ~ P65_URXP01 + CA + P65_URXP01_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P01 ~ P65_URXP01 + CA + P65_URXP01_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P02 ~ P65_URXP02 + female + child + wcba + race_cat + PIR_cat",
"ln_P02 ~ P65_URXP02 + CA + P65_URXP02_CA + female + child + wcba + race_cat + PIR_cat",
"ln_P02 ~ P65_URXP02 + CA + P65_URXP02_CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_P02 ~ P65_URXP02 + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P02 ~ P65_URXP02 + CA + P65_URXP02_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P02 ~ P65_URXP02 + CA + P65_URXP02_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P02 ~ P65_URXP02 + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P02 ~ P65_URXP02 + CA + P65_URXP02_CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P02 ~ P65_URXP02 + CA + P65_URXP02_CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P02 ~ P65_URXP02 + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P02 ~ P65_URXP02 + CA + P65_URXP02_CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P02 ~ P65_URXP02 + CA + P65_URXP02_CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P03 ~ female + child + wcba + race_cat + PIR_cat",
"ln_P03 ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_P03 ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_P03 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P03 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P03 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P03 ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P03 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P03 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P03 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P03 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P03 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P04 ~ female + child + wcba + race_cat + PIR_cat",
"ln_P04 ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_P04 ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_P04 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P04 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P04 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P04 ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P04 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P04 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P04 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P04 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P04 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P06 ~ female + child + wcba + race_cat + PIR_cat",
"ln_P06 ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_P06 ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_P06 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P06 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P06 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P06 ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P06 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P06 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P06 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P06 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P06 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P10 ~ female + child + wcba + race_cat + PIR_cat",
"ln_P10 ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_P10 ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_P10 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P10 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P10 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P10 ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P10 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P10 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P10 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P10 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P10 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P05 ~ female + child + wcba + race_cat + PIR_cat",
"ln_P05 ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_P05 ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_P05 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P05 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P05 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P05 ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P05 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P05 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P05 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P05 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P05 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P07 ~ female + child + wcba + race_cat + PIR_cat",
"ln_P07 ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_P07 ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_P07 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P07 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P07 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P07 ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P07 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P07 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P07 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P07 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P07 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P17 ~ female + child + wcba + race_cat + PIR_cat",
"ln_P17 ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_P17 ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_P17 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P17 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P17 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P17 ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P17 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P17 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P17 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P17 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P17 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P19 ~ female + child + wcba + race_cat + PIR_cat",
"ln_P19 ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_P19 ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_P19 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P19 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P19 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P19 ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P19 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P19 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P19 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P19 ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P19 ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_MPAH ~ female + wcba + race_cat + PIR_cat",
"ln_MPAH ~ CA + female + wcba + race_cat + PIR_cat",
"ln_MPAH ~ CA + time + female + wcba + race_cat + PIR_cat",
"ln_PFDE ~ female + wcba + race_cat + PIR_cat",
"ln_PFDE ~ CA + female + wcba + race_cat + PIR_cat",
"ln_PFDE ~ CA + time + female + wcba + race_cat + PIR_cat",
"ln_PFHS ~ female + wcba + race_cat + PIR_cat",
"ln_PFHS ~ CA + female + wcba + race_cat + PIR_cat",
"ln_PFHS ~ CA + time + female + wcba + race_cat + PIR_cat",
"ln_PFNA ~ female + wcba + race_cat + PIR_cat",
"ln_PFNA ~ CA + female + wcba + race_cat + PIR_cat",
"ln_PFNA ~ CA + time + female + wcba + race_cat + PIR_cat",
"ln_PFOA ~ female + wcba + race_cat + PIR_cat",
"ln_PFOA ~ CA + female + wcba + race_cat + PIR_cat",
"ln_PFOA ~ CA + time + female + wcba + race_cat + PIR_cat",
"ln_PFOS ~ female + wcba + race_cat + PIR_cat",
"ln_PFOS ~ CA + female + wcba + race_cat + PIR_cat",
"ln_PFOS ~ CA + time + female + wcba + race_cat + PIR_cat",
"ln_BPB ~ female + child + wcba + race_cat + PIR_cat",
"ln_BPB ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_BPB ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_THG ~ female + child + wcba + race_cat + PIR_cat",
"ln_THG ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_THG ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_UCD ~ female + child + wcba + race_cat + PIR_cat",
"ln_UCD ~ CA + female + child + wcba + race_cat + PIR_cat",
"ln_UCD ~ CA + time + female + child + wcba + race_cat + PIR_cat",
"ln_UCD ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_UCD ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_UCD ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_UCD ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_UCD ~ CA + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_UCD ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_UCD ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_UCD ~ CA + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_UCD ~ CA + time + female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT"
)
length(OLS_II_formulas)
des_P65 <- as.list(c(rep("phthalates18_design", 18),
rep("phthalates16_design", 12),
rep("phthalates12_design", 12),
rep("phenols14_design", 30),
rep("phenols12_design", 12),
rep("phenols4_design", 6),
rep("urineVOC8_design", 120),
rep("bloodVOC18_design", 3),
rep("bloodVOC16_design", 6),
rep("PAH14_design", 72),
rep("PAH12_design", 24),
rep("PAH10_design", 12),
rep("PAH6_design", 12),
rep("pfas14_design", 18),
rep("lead_merc18_design", 6),
rep("cadmium18_design", 12)
))
tv <- as.list(c(rep("NOTEST", 1),
rep("~P65_URXMZP+P65_URXMZP_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXMZP+P65_URXMZP_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXMBP+P65_URXMBP_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXMBP+P65_URXMBP_CA", 2),
rep("NOTEST", 12),
rep("NOTEST", 1),
rep("~P65_URXMHH+P65_URXMHH_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXMHH+P65_URXMHH_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXCNP+P65_URXCNP_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXCNP+P65_URXCNP_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXCOP+P65_URXCOP_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXCOP+P65_URXCOP_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXBPH+P65_URXBPH_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXBPH+P65_URXBPH_CA", 2),
rep("NOTEST", 42),
rep("NOTEST", 24),
rep("NOTEST", 1),
rep("~P65_URXAAM+P65_URXAAM_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXAAM+P65_URXAAM_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXAAM+P65_URXAAM_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXAAM+P65_URXAAM_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXATC+P65_URXATC_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXATC+P65_URXATC_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXATC+P65_URXATC_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXATC+P65_URXATC_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXBMA+P65_URXBMA_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXBMA+P65_URXBMA_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXBMA+P65_URXBMA_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXBMA+P65_URXBMA_CA", 2),
rep("NOTEST", 60),
rep("NOTEST", 1),
rep("~P65_LBXVCF+P65_LBXVCF_CA", 2),
rep("NOTEST", 1),
rep("~P65_LBXVTO+P65_LBXVTO_CA", 2),
rep("NOTEST", 1),
rep("~P65_LBXVTO+P65_LBXVTO_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXP01+P65_URXP01_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXP01+P65_URXP01_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXP01+P65_URXP01_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXP01+P65_URXP01_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXP02+P65_URXP02_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXP02+P65_URXP02_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXP02+P65_URXP02_CA", 2),
rep("NOTEST", 1),
rep("~P65_URXP02+P65_URXP02_CA", 2),
rep("NOTEST",96),
rep("NOTEST", 18),
rep("NOTEST", 6),
rep("NOTEST", 12)
))
stopifnot(length(OLS_II_formulas)==length(des_P65))
stopifnot(length(OLS_II_formulas)==length(tv))
rough_OLS_II<-NULL
for(i in 1:length(OLS_II_formulas)) {
#for(i in 1:3) { #use this code if something breaks at RDC and we need to run specific specifications
form=OLS_II_formulas[i]
des=des_P65[i]
testvar=tv[i]
mynhanesdesign<-eval(parse(text=des))
mod<-svyglm(form, design=mynhanesdesign)
aic <- mod$aic
reg_results<-tidy(mod) %>%
mutate(coef=estimate,
se=std.error,
p=p.value) %>%
select(c(term, coef, se, p)) %>%
pivot_wider(names_from = term, values_from = c(coef, se, p))
if(testvar!="NOTEST"){
test_lrt <- regTermTest(mod, eval(parse(text=testvar)), method="LRT", lrt.approximation="saddlepoint")
lrt_chi <-test_lrt$chisq
lrt_df <- test_lrt$df
lrt_ddf <- test_lrt$ddf
lrt_p <- test_lrt$p
lrt_lambda1 <- test_lrt$lambda[1]
lrt_lambda2 <- test_lrt$lambda[2]
} else {
lrt_chi <- NA
lrt_df <- NA
lrt_ddf <- NA
lrt_p <- NA
lrt_lambda1 <- NA
lrt_lambda2 <- NA
}
testout<-as.data.frame(cbind(lrt_chi, lrt_df, lrt_ddf, lrt_p, lrt_lambda1, lrt_lambda2))
rough_OLS_II[[i]] <- cbind(reg_results, aic, testout)
}
names(rough_OLS_II) <- str_sub(as.character(OLS_II_formulas), 1, 7)
results_OLS_II <-bind_rows(rough_OLS_II, .id="chemical")
# add indicators so we know which specification is which
results_OLS_II <- results_OLS_II %>%
mutate(creatinine_indic = case_when(is.na(coef_ln_UCR)==F ~ "yes",
TRUE ~ "no"),
cotinine_indic = case_when(is.na(coef_ln_COT)==F ~ "yes",
TRUE ~ "no"))
stopifnot(table(results_OLS_II$creatinine_indic)[2]==171)
stopifnot(table(results_OLS_II$cotinine_indic)[2]==129)
# Take out the variables we can't take out of the RDC
table8 <- results_OLS_II %>%
select(-coef_race_catOther, -se_race_catOther, -p_race_catOther)
# Output the data to a .csv
write_csv(table8, "tables/Table_8.csv")
##########################################################################################
##########################################################################################
### Output Table 9 - Compute marginal means for CA-Pre, CA-Post, Non-CA-Pre, and Non-CA-Post
##########################################################################################
OLS_II_model_with_EMM <- function(form, des, EMMvar) {
# form is the base regression model specification
# des is the survey design object
# EMMvar is the groupfactor
mynhanesdesign<-eval(parse(text=des))
mod<-svyglm(form, design=mynhanesdesign)
results<-tidy(mod) %>%
mutate(coef=estimate,
se=std.error,
p=p.value) %>%
select(c(term, coef)) %>%
pivot_wider(names_from = term, values_from = c(coef))
means <- as.data.frame(svypredmeans(mod, eval(parse(text=EMMvar)))) %>%
mutate(group=c("Non_Pre", "CA_Pre", "Non_Post", "CA_Post"))%>%
pivot_wider(names_from=group, values_from=c(mean, SE))
out<-cbind(results, means)
return(out)
}
OLS_II_EMM_formulas <- c(
"ln_MZP ~ female + child + wcba + race_cat + PIR_cat",
"ln_MZP ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MBP ~ female + child + wcba + race_cat + PIR_cat",
"ln_MBP ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_MHH ~ female + child + wcba + race_cat + PIR_cat",
"ln_MHH ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_CNP ~ female + child + wcba + race_cat + PIR_cat",
"ln_CNP ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_COP ~ female + child + wcba + race_cat + PIR_cat",
"ln_COP ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_BPH ~ female + child + wcba + race_cat + PIR_cat",
"ln_BPH ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_AAM ~ female + child + wcba + race_cat + PIR_cat",
"ln_AAM ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_AAM ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_AAM ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_ATC ~ female + child + wcba + race_cat + PIR_cat",
"ln_ATC ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_ATC ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_ATC ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_BMA ~ female + child + wcba + race_cat + PIR_cat",
"ln_BMA ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_BMA ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_BMA ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_VCF ~ female + wcba + race_cat + PIR_cat",
"ln_VTO ~ female + wcba + race_cat + PIR_cat",
"ln_VTO ~ female + wcba + race_cat + PIR_cat + ln_COT",
"ln_P01 ~ female + child + wcba + race_cat + PIR_cat",
"ln_P01 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P01 ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P01 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT",
"ln_P02 ~ female + child + wcba + race_cat + PIR_cat",
"ln_P02 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR",
"ln_P02 ~ female + child + wcba + race_cat + PIR_cat + ln_COT",
"ln_P02 ~ female + child + wcba + race_cat + PIR_cat + ln_UCR + ln_COT"
)
OLS_II_EMM_des <- as.list(c(rep("phthalates18_design", 4),
rep("phthalates16_design", 2),
rep("phthalates12_design", 4),
rep("phenols14_design", 2),
rep("urineVOC8_design", 12),
rep("bloodVOC18_design", 1),
rep("bloodVOC16_design", 2),
rep("PAH14_design", 8)
))
stopifnot(length(OLS_II_EMM_formulas)==length(OLS_II_EMM_des))
OLS_II_EMM_groupfactor <- c(
"~interaction(CA, P65_URXMZP)",
"~interaction(CA, P65_URXMZP)",
"~interaction(CA, P65_URXMBP)",