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#32 first draft of combined metadata
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# Name: ADVS | ||
# | ||
# Label: Vital Signs Analysis Dataset | ||
# | ||
# Input: adsl, vs | ||
library(admiral) | ||
library(pharmaversesdtm) # Contains example datasets from the CDISC pilot project | ||
library(dplyr) | ||
library(lubridate) | ||
library(stringr) | ||
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#Modified ADVS template to be added here | ||
# | ||
# | ||
# | ||
# | ||
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# Creation of the Growth metadata combining WHO and CDC | ||
# Default reference sources: WHO for children <2 yrs old (<730 days), | ||
# and CDC for children >=2 yrs old (>= 730.5 days) | ||
# Load WHO and CDC metadata datasets ---- | ||
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message("Please be aware that our default reference source is in our metadata : | ||
WHO for <2 yrs old children, and CDC for >=2 yrs old children. | ||
The user could replace these metadata with their own chosen metadata") | ||
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## BMI for age | ||
data(WHO_bmi_for_age_boys) | ||
data(WHO_bmi_for_age_girls) | ||
data(cdc_bmiage) | ||
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bmi_for_age <- who_bmi_for_age_boys %>% | ||
filter(Day <= 729) %>% | ||
mutate(SEX = "M") %>% | ||
rbind(who_bmi_for_age_girls %>% | ||
filter(Day <= 729) %>% | ||
mutate(SEX = "F")) %>% | ||
rename(AGE = Day) %>% | ||
rbind(cdc_bmiage %>% | ||
mutate( | ||
SEX = case_when( | ||
SEX == 1 ~ "M", | ||
SEX == 2 ~ "F", | ||
TRUE ~ NA_character_ | ||
), | ||
AGE = AGE * 30.4375 | ||
)) %>% | ||
arrange(AGE, SEX) | ||
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## HEIGHT for age | ||
data(who_lgth_ht_for_age_boys) | ||
data(who_lgth_ht_for_age_girls) | ||
data(cdc_htage) | ||
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height_for_age <- who_lgth_ht_for_age_boys %>% | ||
filter(Day <= 729) %>% | ||
mutate(SEX = "M") %>% | ||
rbind(who_lgth_ht_for_age_girls %>% | ||
filter(Day <= 729) %>% | ||
mutate(SEX = "F")) %>% | ||
rename(AGE = Day) %>% | ||
rbind(cdc_htage %>% | ||
mutate( | ||
SEX = case_when( | ||
SEX == 1 ~ "M", | ||
SEX == 2 ~ "F", | ||
TRUE ~ NA_character_ | ||
), | ||
AGE = AGE * 30.4375 | ||
)) %>% | ||
arrange(AGE, SEX) | ||
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## WEIGHT for age | ||
data(who_wt_for_age_boys) | ||
data(who_wt_for_age_girls) | ||
data(cdc_wtage) | ||
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weight_for_age <- who_wt_for_age_boys %>% | ||
filter(Day <= 729) %>% | ||
mutate(SEX = "M") %>% | ||
rbind(who_wt_for_age_girls %>% | ||
filter(Day <= 729) %>% | ||
mutate(SEX = "F")) %>% | ||
rename(AGE = Day) %>% | ||
rbind(cdc_wtage %>% | ||
mutate( | ||
SEX = case_when( | ||
SEX == 1 ~ "M", | ||
SEX == 2 ~ "F", | ||
TRUE ~ NA_character_ | ||
), | ||
AGE = AGE * 30.4375 | ||
)) %>% | ||
arrange(AGE, SEX) | ||
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## WHO - HEAD CIRCUMFERENCE for age | ||
data(who_hc_for_age_boys) | ||
data(who_hc_for_age_girls) | ||
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who_hc_for_age <- who_hc_for_age_boys %>% | ||
filter(Day <= 729) %>% | ||
mutate(SEX = "M") %>% | ||
rbind(who_hc_for_age_girls %>% | ||
filter(Day <= 729) %>% | ||
mutate(SEX = "F")) %>% | ||
rename(AGE = Day) %>% | ||
arrange(AGE, SEX) | ||
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## WHO - WEIGHT/HEIGHT | ||
data(who_wt_for_ht_boys) | ||
data(who_wt_for_ht_girls) | ||
data(who_wt_for_lgth_boys) | ||
data(who_wt_for_lgth_girls) | ||
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who_wt_for_ht_lgth <- who_wt_for_ht_boys %>% | ||
mutate(SEX = "M") %>% | ||
rbind(who_wt_for_ht_girls %>% | ||
mutate(SEX = "F")) %>% | ||
mutate(MEASURE = "HEIGHT") %>% | ||
rename(HEIGHT_LENGTH = Height) %>% | ||
rbind(who_wt_for_lgth_boys %>% | ||
mutate(SEX = "M") %>% | ||
rbind(who_wt_for_lgth_girls %>% | ||
mutate(SEX = "F")) %>% | ||
mutate(MEASURE = "LENGTH") %>% | ||
rename(HEIGHT_LENGTH = Length)) | ||
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