bunch_translate

translate_bunch

Nucleotide to amino acid sequence translation

A comprehensive framework for bioinformatics exploratory analysis of bulk and single-cell
T-cell receptor and antibody repertoires. It provides seamless data loading, analysis and
visualisation for AIRR (Adaptive Immune Receptor Repertoire) data, both bulk immunosequencing (RepSeq)
and single-cell sequencing (scRNAseq). Immunarch implements most of the widely used AIRR analysis methods,
such as: clonality analysis, estimation of repertoire similarities in distribution of clonotypes
and gene segments, repertoire diversity analysis, annotation of clonotypes using external immune receptor
databases and clonotype tracking in vaccination and cancer studies. A successor to our
previously published 'tcR' immunoinformatics package (Nazarov 2015) <doi:10.1186/s12859-015-0613-1>.

Vadim I. Nazarov

immunarch

Bioinformatics Analysis of T-Cell and B-Cell Immune Repertoires

Vasily O. Tsvetkov

Siarhei Fiadziushchanka

Eugene Rumynskiy

Aleksandr A. Popov

Ivan Balashov

Maria Samokhina

Anna Lorenc

Daniel J. Moore

Victor Greiff

ImmunoMind 

bunch_translate function

<dl><dt>.seq</dt>
<dd>Vector or list of strings.</dd>
<dt>.two.way</dt>
<dd>Logical. If TRUE (default) then translate from the both ends (like MIXCR).</dd>
<dt>.ignore.n</dt>
<dd>Logical. If FALSE (default) then return NA for sequences that have N, else parse triplets with N as ~</dd></dl>

Arguments

Nucleotide to amino acid sequence translation — bunch_translate

<dl>

<dt>.seq</dt>
<dd>Vector or list of strings.</dd>


<dt>.two.way</dt>
<dd>Logical. If TRUE (default) then translate from the both ends (like MIXCR).</dd>


<dt>.ignore.n</dt>
<dd>Logical. If FALSE (default) then return NA for sequences that have N, else parse triplets with N as ~</dd>

</dl>

Nucleotide to amino acid sequence translation

bunch_translate: Nucleotide to amino acid sequence translation

Description

Usage

Value

Arguments

Examples