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Step: Identification Overview

step_ident_overview.Rd

Summarize the experiment using glyexp::summarize_experiment(). This is usually the first step, BEFORE step_preprocess(). Very light-weight to run, so always include it.

Usage

step_ident_overview(count_struct = NULL)

Arguments

count_struct

For counting glycopeptides and glycoforms. whether to count the number of glycan structures or glycopeptides. If TRUE, glycopeptides or glycoforms bearing different glycan structures with the same glycan composition are counted as different ones. If not provided (NULL), defaults to TRUE if glycan_structure column exists in the variable information tibble, otherwise FALSE.

Value

A glysmith_step object.

Details

Data required:

  • exp: The experiment to summarize

Tables generated:

  • summary: A table containing the identification overview of the experiment

AI Prompt

This section is for AI in inquire_blueprint() only.

  • Always include this step by default unless the user explicitly excludes it.

  • Use it as the first step in the blueprint.

See also

glyexp::summarize_experiment()

Examples

step_ident_overview()
#> <step "step_ident_overview()"> Identification overview