Create 1-data-exploration.R

ML/1-data-exploration.R

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+rm(list = ls(all.names = TRUE)) # Clear the memory of variables from previous run.
+cat("\014") # Clear the console
+
+
+# load packages -----------------------------------------------------------
+
+box::use(
+  magrittr[`%>%`]
+  ,here[here]
+  ,dplyr
+  ,readr
+  ,tidyr
+  ,ggplot2
+)
+
+
+
+
+# load data ---------------------------------------------------------------
+
+ds_high_tsh <-   readr$read_rds(
+    here("ML","data-unshared","ds_high_tsh.RDS")
+  )
+
+
+
+# data manipulation -------------------------------------------------------
+
+#here I am adding a column to determine if the Free T4 Value is diagnostic or not
+# using the FT4 Referance range low as the cut off (0.93)
+
+
+ds_high_tsh <- ds_high_tsh %>%
+  dplyr$mutate(ft4_dia = dplyr$if_else(`50995` < 0.93, 1, 0))
+
+
+
+# basic visualization -----------------------------------------------------
+
+g1 <- ds_high_tsh %>%
+  dplyr$select(-subject_id, - charttime) %>%
+  dplyr$mutate(dplyr$across(gender, ~dplyr$recode(.,M = 1, F = 2))) %>%
+  tidyr$pivot_longer(cols = dplyr$everything()) %>%
+