read_fsa

Read fsa file into memory and create fragments_trace object

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

read_fsa function

<dl><dt>files</dt>
<dd>a chr vector of fsa file names. For example, return all the fsa files in a directory with 'list.files("example_directory/", full.names = TRUE, pattern = ".fsa")'.</dd></dl>

Arguments

Read fsa file — read_fsa

<dl>

<dt>files</dt>
<dd>a chr vector of fsa file names. For example, return all the fsa files in a directory with 'list.files("example_directory/", full.names = TRUE, pattern = ".fsa")'.</dd>

</dl>

read_fsa: Read fsa file

Description

Usage

Value

Arguments

Details

See Also

Examples