set_pb

add_pb

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 

set_pb function

<dl><dt>.max</dt>
<dd>Integer. Maximal value of the progress bar.</dd>
<dt>.pb</dt>
<dd>Progress bar object from <code>set_pb</code>.</dd>
<dt>.value</dt>
<dd>Numeric. Value to add to the progress bar at each step.</dd></dl>

Arguments

pb &lt;- immunarch:::set_pb(100)
immunarch:::add_pb(pb, 25)
immunarch:::add_pb(pb, 25)
immunarch:::add_pb(pb, 25)
immunarch:::add_pb(pb, 25)
close(pb)

Developer Examples

Set and update progress bars — set_pb

<dl>

<dt>.max</dt>
<dd>Integer. Maximal value of the progress bar.</dd>


<dt>.pb</dt>
<dd>Progress bar object from <code>set_pb</code>.</dd>


<dt>.value</dt>
<dd>Numeric. Value to add to the progress bar at each step.</dd>

</dl>

pb &lt;- immunarch:::set_pb(100)
immunarch:::add_pb(pb, 25)
immunarch:::add_pb(pb, 25)
immunarch:::add_pb(pb, 25)
immunarch:::add_pb(pb, 25)
close(pb)

Set and update progress bars

set_pb: Set and update progress bars

Description

Usage

Value

Arguments

Developer Examples