mergeCloneSizes

The list of clustered clonotype frequencies from countCloneSizes
can be merged by this function to a frequency table of all clonotypes
similar to the data that can be seen in the seurat object metadata.
By default, this function sorts the table with largest clonotypes first,
and this may be useful for quickly gauging which clonotypes are the most
expanded overall.

Visualize clonal expansion via circle-packing. 'APackOfTheClones' extends 'scRepertoire' to produce a publication-ready visualization of clonal expansion at a single cell resolution, by representing expanded clones as differently sized circles. The method was originally implemented by Murray Christian and Ben Murrell in the following immunology study: Ma et al. (2021) <doi:10.1126/sciimmunol.abg6356>.

Qile Yang

APackOfTheClones

Visualization of Clonal Expansion for Single Cell Immune
Profiles

mergeCloneSizes function

<dl><dt>clustered_clone_sizes</dt>
<dd>the output of countCloneSizes.</dd>
<dt>sort_decreasing</dt>
<dd>a logical or NULL. If <code>TRUE</code>/<code>FALSE</code>, sorts the
table by clonotype frequency with largest/smallest clones first, and if
NULL, no order is guaranteed but the output is deterministic.</dd></dl>

Arguments

Merge a list of Clustered Clonotype Frequency Tables — mergeCloneSizes

<dl>

<dt>clustered_clone_sizes</dt>
<dd>the output of countCloneSizes.</dd>


<dt>sort_decreasing</dt>
<dd>a logical or NULL. If <code>TRUE</code>/<code>FALSE</code>, sorts the
table by clonotype frequency with largest/smallest clones first, and if
NULL, no order is guaranteed but the output is deterministic.</dd>

</dl>

mergeCloneSizes: Merge a list of Clustered Clonotype Frequency Tables

Description

Usage

Value

Arguments

See Also

Examples