pivot_wider: Pivot data from long to wide

In stemangiola/tidySE: Brings SummarizedExperiment to the Tidyverse

Pivot data from long to wide

Description

pivot_wider() "widens" data, increasing the number of columns and decreasing the number of rows. The inverse transformation is pivot_longer().

Learn more in vignette("pivot").

Usage

## S3 method for class 'SummarizedExperiment'
pivot_wider(
  data,
  ...,
  id_cols = NULL,
  id_expand = FALSE,
  names_from = name,
  names_prefix = "",
  names_sep = "_",
  names_glue = NULL,
  names_sort = FALSE,
  names_vary = "fastest",
  names_expand = FALSE,
  names_repair = "check_unique",
  values_from = value,
  values_fill = NULL,
  values_fn = NULL,
  unused_fn = NULL
)

Arguments

data	A data frame to pivot.
...	Additional arguments passed on to methods.
id_cols	<tidy-select> A set of columns that uniquely identify each observation. Typically used when you have redundant variables, i.e. variables whose values are perfectly correlated with existing variables. Defaults to all columns in data except for the columns specified through names_from and values_from. If a tidyselect expression is supplied, it will be evaluated on data after removing the columns specified through names_from and values_from.
id_expand	Should the values in the id_cols columns be expanded by expand() before pivoting? This results in more rows, the output will contain a complete expansion of all possible values in id_cols. Implicit factor levels that aren't represented in the data will become explicit. Additionally, the row values corresponding to the expanded id_cols will be sorted.
names_from, values_from	<tidy-select> A pair of arguments describing which column (or columns) to get the name of the output column (names_from), and which column (or columns) to get the cell values from (values_from). If values_from contains multiple values, the value will be added to the front of the output column.
names_prefix	String added to the start of every variable name. This is particularly useful if names_from is a numeric vector and you want to create syntactic variable names.
names_sep	If names_from or values_from contains multiple variables, this will be used to join their values together into a single string to use as a column name.
names_glue	Instead of names_sep and names_prefix, you can supply a glue specification that uses the names_from columns (and special .value) to create custom column names.
names_sort	Should the column names be sorted? If FALSE, the default, column names are ordered by first appearance.
names_vary	When names_from identifies a column (or columns) with multiple unique values, and multiple values_from columns are provided, in what order should the resulting column names be combined? "fastest" varies names_from values fastest, resulting in a column naming scheme of the form: ⁠value1_name1, value1_name2, value2_name1, value2_name2⁠. This is the default. "slowest" varies names_from values slowest, resulting in a column naming scheme of the form: ⁠value1_name1, value2_name1, value1_name2, value2_name2⁠.
names_expand	Should the values in the names_from columns be expanded by expand() before pivoting? This results in more columns, the output will contain column names corresponding to a complete expansion of all possible values in names_from. Implicit factor levels that aren't represented in the data will become explicit. Additionally, the column names will be sorted, identical to what names_sort would produce.
names_repair	What happens if the output has invalid column names? The default, "check_unique" is to error if the columns are duplicated. Use "minimal" to allow duplicates in the output, or "unique" to de-duplicated by adding numeric suffixes. See vctrs::vec_as_names() for more options.
values_fill	Optionally, a (scalar) value that specifies what each value should be filled in with when missing. This can be a named list if you want to apply different fill values to different value columns.
values_fn	Optionally, a function applied to the value in each cell in the output. You will typically use this when the combination of id_cols and names_from columns does not uniquely identify an observation. This can be a named list if you want to apply different aggregations to different values_from columns.
unused_fn	Optionally, a function applied to summarize the values from the unused columns (i.e. columns not identified by id_cols, names_from, or values_from). The default drops all unused columns from the result. This can be a named list if you want to apply different aggregations to different unused columns. id_cols must be supplied for unused_fn to be useful, since otherwise all unspecified columns will be considered id_cols. This is similar to grouping by the id_cols then summarizing the unused columns using unused_fn.

Details

pivot_wider() is an updated approach to spread(), designed to be both simpler to use and to handle more use cases. We recommend you use pivot_wider() for new code; spread() isn't going away but is no longer under active development.

Value

tidySummarizedExperiment

See Also

pivot_wider_spec() to pivot "by hand" with a data frame that defines a pivoting specification.

Examples

# See vignette("pivot") for examples and explanation
library(dplyr)
tidySummarizedExperiment::pasilla %>%
    pivot_wider(names_from=feature, values_from=counts)

stemangiola/tidySE documentation built on June 2, 2024, 9:51 a.m.