Convert Size Table to Fragments

This function converts a size table data frame into a list of fragments. class.

Usage

size_table_to_fragments(df, min_size_bp = 200, max_size_bp = 1000)

Arguments

df

A data frame containing the size data with the columns "unique_id", "size", "signal".

min_size_bp

Numeric value indicating the minimum size of the peak table to import.

max_size_bp

Numeric value indicating the maximum size of the peak table to import.

Value

A list of fragments objects.

Details

This function takes a size table data frame and converts it into a list of fragments objects. The column names must be "unique_id" (unique sample id), "size" (base pair size), and "signal" (the signal associated with fragment). The dataframe should be long (eg bind rows if the data are separate).

See also

repeat_table_to_fragments(), size_table_to_fragments(), read_fsa()

Examples

size_table <- trace::example_data
colnames(size_table)[c(2, 5, 6)] <- c("unique_id", "size", "signal")
fragments_list <- size_table_to_fragments(size_table)