extract_ladder_summary

Extract a table summarizing the ladder models

A pipeline for short tandem repeat instability analysis from fragment analysis data. Inputs of fsa files or peak tables, and a user supplied metadata data-frame. The package identifies ladders, calls peaks, identifies the modal peaks, calls repeats, then calculates repeat instability metrics (e.g. expansion index from Lee et al. (2010) <doi:10.1186/1752-0509-4-29>).

Zachariah McLean

trace

Tandem Repeat Analysis by Capillary Electrophoresis

Kevin Correia

Andrew Jiang

extract_ladder_summary function

<dl><dt>fragments_trace_list</dt>
<dd>a list of fragments trace objects</dd>
<dt>sort</dt>
<dd>A logical statement for if the samples should be ordered by average ladder R-squared.</dd></dl>

Arguments

Extract ladder summary — extract_ladder_summary

<dl>

<dt>fragments_trace_list</dt>
<dd>a list of fragments trace objects</dd>


<dt>sort</dt>
<dd>A logical statement for if the samples should be ordered by average ladder R-squared.</dd>

</dl>

extract_ladder_summary: Extract ladder summary

Description

Usage

Value

Arguments

Details

Examples