writeCloneSequences

<code>writeCloneSequences</code> Exports the sequences used in tree building.

Provides a set of functions for inferring, visualizing, and analyzing B cell phylogenetic trees.
Provides methods to 1) reconstruct unmutated ancestral sequences,
2) build B cell phylogenetic trees using multiple methods,
3) visualize trees with metadata at the tips,
4) reconstruct intermediate sequences,
5) detect biased ancestor-descendant relationships among metadata types
Workflow examples available at documentation site (see URL).
Citations:
Hoehn et al (2022) <doi:10.1371/journal.pcbi.1009885>,
Hoehn et al (2021) <doi:10.1101/2021.01.06.425648>.

Kenneth Hoehn

dowser

B Cell Receptor Phylogenetics Toolkit

Cole Jensen

Jessie Fielding

Hunter Melton

Susanna Marquez

Jason Vander Heiden

Steven Kleinstein

writeCloneSequences function

<dl><dt>clones</dt>
<dd>tibble <code>airrClone</code> objects, the output of 
formatClones</dd>
<dt>file</dt>
<dd>The file path and name of where the sequences will be saved</dd></dl>

Arguments

Write the sequences used in tree building to a fasta format. If there are more 
than one tree in airrClone output the sequence id will be followed by "|clone_id". — writeCloneSequences

<dl>

<dt>clones</dt>
<dd>tibble <code>airrClone</code> objects, the output of 
formatClones</dd>


<dt>file</dt>
<dd>The file path and name of where the sequences will be saved</dd>

</dl>

Write the sequences used in tree building to a fasta format. If there are more 
than one tree in airrClone output the sequence id will be followed by "|clone_id".

writeCloneSequences: Write the sequences used in tree building to a fasta format. If there are more than one tree in airrClone output the sequence id will be followed by "|clone_id".

Description

Usage

Arguments