Aggregate results into a single matrix — extract

For a given column in data, this function will generate a dataframe with all samples. Exports all positions (if only_annotated is false) or only annotated positions (if only_annotated is true).

Usage

extract_data(
  ribo,
  col = "cscore",
  position_to_rownames = FALSE,
  only_annotated = FALSE
)

Arguments

ribo: A RiboClass object.
col: Column in data you want extract data from (cscore or count).
position_to_rownames: If true, position will be included as a rowname. They will in a new column otherwise.
only_annotated: If true, return a dataframe with only annotated sites. Return all sites otherwise.

Value

A position x samples dataframe. Position can be all or only annotated sites. A site column can be added if position_to_rownames = FALSE.

Examples

data('ribo_toy')
count_df <- extract_data(ribo_toy,'count')