Af_get_sequences

Function to get the sequences from the nodes in an AntibodyForest object

The generated wealth of immune repertoire sequencing data
requires software to investigate and quantify inter- and
intra-antibody repertoire evolution to uncover how B cells evolve
during immune responses. Here, we present 'AntibodyForests', a software
to investigate and quantify inter- and intra-antibody repertoire
evolution.

Alexander Yermanos

AntibodyForests

Delineating Inter- And Intra-Antibody Repertoire Evolution

Daphne van Ginneken

Valentijn Tromp

Tudor-Stefan Cotet

Af_get_sequences function

<dl><dt>AntibodyForests_object</dt>
<dd>AntibodyForests-object, output from Af_build()</dd>
<dt>sequence.name</dt>
<dd>character, name of the sequence column in the AntibodyForests object (example VDJ_sequence_aa_trimmed)</dd>
<dt>min.nodes</dt>
<dd>integer, minimum number of nodes in the tree (not including germline)</dd>
<dt>min.edges</dt>
<dd>integer, minimum number of edges in the tree (not including edges to the germline)</dd></dl>

Arguments

Function to get the sequences from the nodes in an AntibodyForest object — Af_get_sequences

<dl>

<dt>AntibodyForests_object</dt>
<dd>AntibodyForests-object, output from Af_build()</dd>


<dt>sequence.name</dt>
<dd>character, name of the sequence column in the AntibodyForests object (example VDJ_sequence_aa_trimmed)</dd>


<dt>min.nodes</dt>
<dd>integer, minimum number of nodes in the tree (not including germline)</dd>


<dt>min.edges</dt>
<dd>integer, minimum number of edges in the tree (not including edges to the germline)</dd>

</dl>

Af_get_sequences: Function to get the sequences from the nodes in an AntibodyForest object

Description

Usage

Value

Arguments

Examples