extract_fragments: Extract All Fragments

In trace: Tandem Repeat Analysis by Capillary Electrophoresis

Extract All Fragments

Description

Extracts peak data from each sample in a list of fragments.

Usage

extract_fragments(fragments_list)

Arguments

fragments_list

A list of fragments_repeats objects containing fragment data.

Value

A dataframe containing peak data for each sample

Examples

gm_raw <- trace::example_data
metadata <- trace::metadata

test_fragments <- peak_table_to_fragments(gm_raw,
  data_format = "genemapper5",
  dye_channel = "B",
  min_size_bp = 400
)

add_metadata(
  fragments_list = test_fragments,
  metadata_data.frame = metadata
)

find_alleles(
  fragments_list = test_fragments
)

call_repeats(
  fragments_list = test_fragments,
  assay_size_without_repeat = 87,
  repeat_size = 3
)

extract_alleles(test_fragments)

trace documentation built on April 4, 2025, 1:50 a.m.