immdata

A dataset with single chain TCR data for testing and examplatory purposes.

datasets

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 

immdata function

A list of two elements. The first element ("data") is a list with data frames with clonotype tables.
The second element ("meta") is a metadata table.<dl>
 <dt>data</dt>
<dd>List of immune repertoire data frames.</dd> <dt>meta</dt>
<dd>Metadata</dd> ...</dl>

Format

Single chain immune repertoire dataset — immdata

A list of two elements. The first element ("data") is a list with data frames with clonotype tables.
The second element ("meta") is a metadata table.<dl>
 <dt>data</dt>
<dd>List of immune repertoire data frames.</dd>

 <dt>meta</dt>
<dd>Metadata</dd>

 ...

</dl>

Single chain immune repertoire dataset

immdata: Single chain immune repertoire dataset

Description

Usage

Arguments

Format