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MegaScale / src /summarize_map.R
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#' Diagnostics for messy joins
#'
#' given a data frame with two ways to group rows,
#' summarize and give examples of situations where the mapping is not 1-1
#'
#' @param x_cols tidyselect specification of a set of columns defining objects
#' @param y_cols tidyselect specification of a set of columns defining objects
#'
#' data <- data.frame(
#' x=c(1,2,NA,3,4,5,6,6,6,7,7),
#' y=c("a",NA,"c","d","d","d","e","f","g","h","h"))
#'
#' data |> summarize_map(
#' x_cols = x),
#' y_cols = y))
#' X<-[x]:
#' |X|: 7 # number of groups
#' |is.na.X|: 1 # number of groups with NA in atleaset 1 col
#' range(|x|:X): 1, 3 # size range of groups
#' Y<-[y]:
#' |Y|: 7
#' |is.na.Y|: 1
#' range(|y|:Y): 1, 3
#' [X U Y]: # grouping by the union of xcols and ycols
#' |X U Y|: 8
#' |is.na.XUY|: 2
#' range(|z|:X U Y): 1, 2
#' [X @ Y]:
#' |X ~ Y|: 5
#' |X:X < Y|, |Y:Y < X|: 1, 1
#' |X:X > Y|, |Y:Y < X|: 3, 3
#' $is.na.X
#' x y
#' 1 NA c
#'
#' $is.na.Y
#' x y
#' 1 2 <NA>
#'
#' $dup.XUY
#' x y
#' 1 7 h
#' 2 7 h
#'
#' $dup.X
#' x y
#' 1 6 e
#' 2 6 f
#' 3 6 g
#'
#' $dup.Y
#' y x
#' 1 d 3
#' 2 d 4
#' 3 d 5
#' @export
summarize_map <- function(
data,
x_cols,
y_cols,
n_examples = 4,
verbose = FALSE) {
# convert column selections named vectors of column indices into data
x_cols <- tidyselect::eval_select(rlang::enquo(x_cols), data)
y_cols <- tidyselect::eval_select(rlang::enquo(y_cols), data)
xUy_cols <- union(x_cols, y_cols)
names(xUy_cols) <- names(data[xUy_cols])
if(verbose) {
cat("The following is a report of the relationship between two different ways of identifying instances\n")
}
# example rows
problems <- list()
count_xUy <- data |>
dplyr::count(dplyr::across(tidyselect::all_of(xUy_cols))) |>
dplyr::ungroup()
count_x <- count_xUy |>
dplyr::count(dplyr::across(tidyselect::all_of(names(x_cols))), name = "size") |>
dplyr::ungroup()
count_y <- count_xUy |>
dplyr::count(dplyr::across(tidyselect::all_of(names(y_cols))), name = "size") |>
dplyr::ungroup()
if (verbose) {
cat("\nProperties of X identifiers:\n")
}
cat("X<-[", paste(names(x_cols), collapse = ", "), "]:\n", sep = "")
cat(" |X|: ", count_x |> stats::na.omit(method = "r") |> nrow(), sep = "")
na_count <- data |>
dplyr::select(tidyselect::all_of(x_cols)) |>
stats::complete.cases() |>
magrittr::not() |>
sum()
cat(
ifelse(
na_count == 0,
"",
paste0(" (", na_count, " NA)")),
"\n", sep = "")
size_dist <- count_x |>
stats::na.omit(method = "r") |>
dplyr::count(size) |>
dplyr::ungroup()
if (nrow(size_dist) < 12) {
cat(" count*size: ",
paste(size_dist$n, size_dist$size, sep = "*", collapse = ", "),
"\n", sep = "")
} else {
top <- 1:6
bottom <- (nrow(size_dist) - 6+1):nrow(size_dist)
cat(" count*size: ",
paste(
size_dist$n[top],
size_dist$size[top], sep = "*", collapse = ", "),
", ... ",
paste(
size_dist$n[bottom],
size_dist$size[bottom], sep = "*", collapse = ", "),
"\n", sep="")
}
if (verbose) {
cat("\nProperties of the Y identifiers:\n")
}
cat("Y<-[", paste(names(y_cols), collapse = ", "), "]:\n", sep = "")
cat(" |Y|: ", count_y |> stats::na.omit(method = "r") |> nrow(), sep = "")
na_count <- data |>
dplyr:::select(tidyselect::all_of(y_cols)) |>
stats::complete.cases() |>
magrittr::not() |>
sum()
cat(ifelse(na_count == 0, "", paste0(" (", na_count, " NA)")), "\n", sep = "")
size_dist <- count_y |>
stats::na.omit(method = "r") |>
dplyr::count(size) |>
dplyr::ungroup()
if (nrow(size_dist) < 12) {
cat(" count*size: ",
paste(size_dist$n, size_dist$size, sep = "*", collapse = ", "),
"\n", sep = "")
} else {
top <- 1:6
bottom <- (nrow(size_dist) - 6+1):nrow(size_dist)
cat(" count*size: ",
paste(
size_dist$n[top],
size_dist$size[top], sep = "*", collapse = ", "),
", ... ",
paste(
size_dist$n[bottom],
size_dist$size[bottom], sep = "*", collapse = ", "),
"\n", sep="")
}
if (verbose) {
cat("\nProperties of the intersection of union of the X and Y identifiers:\n")
}
cat("[X U Y]:\n")
cat(" |X U Y|: ", count_xUy |> stats::na.omit(method = "r") |> nrow(), sep = "")
na_count <- data |>
dplyr:::select(!!!xUy_cols) |>
stats::complete.cases() |>
magrittr::not() |>
sum()
cat(ifelse(na_count == 0, "", paste0(" (", na_count, " NA)")), "\n", sep = "")
size_dist <- count_xUy |>
stats::na.omit(method = "r") |>
dplyr::rename(size = n) |>
dplyr::count(size) |>
dplyr::ungroup()
if (nrow(size_dist) < 12) {
cat(" count*size: ",
paste(size_dist$n, size_dist$size, sep = "*", collapse = ", "),
"\n", sep="")
} else {
top <- 1:6
bottom <- (nrow(size_dist) - 6+1):nrow(size_dist)
cat(" count*size: ",
paste(
size_dist$n[top],
size_dist$size[top], sep = "*", collapse = ", "),
", ... ",
paste(
size_dist$n[bottom],
size_dist$size[bottom], sep = "*", collapse = ", "),
"\n", sep = "")
}
count_xUy <- count_xUy |> stats::na.omit(method = "r")
if (verbose) {
cat("Properties of the intersection of the X and Y identifiers:\n")
}
cat("[X @ Y]:\n")
if (verbose) {
cat(" Number of X and Y identifiers that are 1 to 1:\n")
}
cat(" |X ~ Y|: ",
count_xUy |>
dplyr::semi_join(
count_x |> dplyr::filter(size == 1),
by = names(x_cols)) |>
dplyr::semi_join(
count_y |> dplyr::filter(size == 1),
by = names(y_cols)) |>
nrow(),
"\n", sep = "")
if (verbose) {
cat(" Number of X and Y identifiers where an X identifier maps to multiple Y identifiers:\n")
}
cat(
" |X:X < Y|, |Y:Y < X|: ",
count_xUy |>
dplyr::semi_join(
count_x |> dplyr::filter(size > 1),
by = names(x_cols)) |>
nrow(),
", ",
count_xUy |>
dplyr::count(
dplyr::across(tidyselect::all_of(names(x_cols))),
name = "size") |>
dplyr::filter(size > 1) |>
nrow(),
"\n", sep = "")
if (verbose) {
cat(
" Number of X and Y identifiers where a Y identifier maps to ",
"multiple X identifiers:\n")
}
cat(
" |X:X > Y|, |Y:Y > X|: ",
count_xUy |>
dplyr::semi_join(
count_y |>
dplyr::filter(size > 1),
by = names(y_cols)) |>
nrow(),
", ",
count_xUy |>
dplyr::count(
dplyr::across(tidyselect::all_of(names(y_cols))),
name = "size") |>
dplyr::filter(size > 1) |>
nrow(),
"\n", sep = "")
#is.na.X
ex_rows <- data |>
dplyr:::select(tidyselect::all_of(x_cols)) |>
stats::complete.cases() |>
magrittr::not() |>
which()
if (length(ex_rows)) {
if (!is.null(n_examples) && (n_examples < length(ex_rows))) {
ex_rows <- ex_rows |> sample(n_examples, replace = FALSE)
}
problems$is.na.X <- data |>
dplyr::slice(ex_rows) |>
dplyr::arrange(dplyr::across(tidyselect::all_of(names(x_cols))))
}
#is.na.Y
ex_rows <- data |>
dplyr:::select(tidyselect::all_of(y_cols)) |>
stats::complete.cases() |>
magrittr::not() |>
which()
if (length(ex_rows)) {
if (!is.null(n_examples) && (n_examples < length(ex_rows))) {
ex_rows <- ex_rows |> sample(n_examples, replace = FALSE)
}
problems$is.na.Y <- data |>
dplyr::slice(ex_rows) |>
dplyr::arrange(dplyr::across(tidyselect::all_of(names(y_cols))))
}
#dup.X
dup.X <- count_xUy |>
dplyr::filter(n == 1) |>
dplyr::count(
dplyr::across(tidyselect::all_of(names(x_cols))),
name = "size") |>
dplyr::filter(size > 1) |>
dplyr::ungroup() |>
dplyr:::select(-size)
if (nrow(dup.X) > 1) {
if (!is.null(n_examples) && (n_examples < nrow(dup.X))) {
dup.X <- dup.X |> dplyr::sample_n(n_examples, replace = FALSE)
}
problems$dup.X <- dup.X |>
dplyr::left_join(data, by = names(x_cols)) |>
dplyr::arrange(dplyr::across(tidyselect::all_of(names(x_cols))))
}
#dup.Y
dup.Y <- count_xUy |>
dplyr::filter(n == 1) |>
dplyr::count(
dplyr::across(tidyselect::all_of(names(y_cols))),
name = "size") |>
dplyr::filter(size > 1) |>
dplyr::ungroup() |>
dplyr:::select(-size)
if (nrow(dup.Y) > 1) {
if (!is.null(n_examples) && (n_examples < nrow(dup.Y))) {
dup.Y <- dup.Y |> dplyr::sample_n(n_examples, replace = FALSE)
}
problems$dup.Y <- dup.Y |>
dplyr::left_join(data, by = names(ycols)) |>
dplyr::arrange(dplyr::across(tidyselect::all_of(names(y_cols))))
}
#dup.XUY
dup.XUY <- count_xUy |>
dplyr::filter(n > 1) |>
dplyr:::select(-n)
if (nrow(dup.XUY) > 1) {
if (!is.null(n_examples) && (n_examples < nrow(dup.XUY))) {
dup.XUY <- dup.XUY |> dplyr::sample_n(n_examples, replace = FALSE)
}
problems$dup.XUY <- dup.XUY |>
dplyr::left_join(data, by = names(xUy_cols)) |>
dplyr::arrange(dplyr::across(tidyselect::all_of(names(xUy_cols))))
}
if (verbose) {
cat("Returned instances where:\n")
cat("\tis.na.X: The X identifier is NA\n")
cat("\tis.na.Y: The Y identifier is NA\n")
cat("\tdup.X: The X identifier is not unique\n")
cat("\tdup.Y: The Y identifier is not unique\n")
cat("\tdup.XUY: The X and Y identifiers together are not unique\n")
}
problems
}