get_best: Get smallest distance for each individual

In kbroman/lineup2: Lining Up Two Sets of Measurements

Get smallest distance for each individual

Description

For each individual represented in a distance matrix, find the smallest entry (with NAs for individuals present in only the rows or only the columns).

Usage

get_best(d, dimension = c("row", "column"), get_min = TRUE)

Arguments

d	A distance matrix
dimension	Whether to get the minimum by row or by column
get_min	If TRUE, get the minimum; if FALSE, get the maximum

Value

A vector with all distinct individuals, with the minimum (or maximum) value by row or column. We include all individuals so that the results are aligned with the results of get_self().

See Also

get_self(), get_2ndbest(), which_best(), get_nonself()

Examples

# align rows in the provided dataset, lineup2ex
aligned <- align_matrix_rows(lineup2ex$gastroc, lineup2ex$islet)
# find correlated columns
selected_genes <- (corr_betw_matrices(aligned[[1]], aligned[[2]], "paired") > 0.75)
# calculate correlation between rows
similarity <- corr_betw_matrices(t(lineup2ex$gastroc[,selected_genes]),
                                 t(lineup2ex$islet[,selected_genes]), "all")
# maximum value by row
best_byrow <- get_best(similarity, get_min=FALSE)

# maximum value by column
best_bycol <- get_best(similarity, get_min=FALSE, dimension="column")

kbroman/lineup2 documentation built on May 16, 2023, 12:18 p.m.