ploidy

Infer Ploidy from ATAC-seq Fragment Overlap

Compute ploidy of single cells (or nuclei)
based on single-cell (or single-nucleus)
ATAC-seq (Assay for Transposase-Accessible Chromatin using sequencing)
data <https://github.com/fumi-github/scPloidy>.

Fumihiko Takeuchi

scPloidy

Infer Ploidy of Single Cells

ploidy function

<dl><dt>fragmentoverlap</dt>
<dd>Frequency of fragment overlap in each cell
computed by the function <code>fragmentoverlapcount</code>.</dd>
<dt>levels</dt>
<dd>Possible values of ploidy. For example,
<code>c(2, 4)</code> if the cells can be diploids or tetraploids.
The values must be larger than one.</dd>
<dt>s</dt>
<dd>Seed for random numbers used in EM algorithm.</dd></dl>

Arguments

Infer Ploidy from ATAC-seq Fragment Overlap — ploidy

<dl>

<dt>fragmentoverlap</dt>
<dd>Frequency of fragment overlap in each cell
computed by the function <code>fragmentoverlapcount</code>.</dd>


<dt>levels</dt>
<dd>Possible values of ploidy. For example,
<code>c(2, 4)</code> if the cells can be diploids or tetraploids.
The values must be larger than one.</dd>


<dt>s</dt>
<dd>Seed for random numbers used in EM algorithm.</dd>

</dl>

ploidy: Infer Ploidy from ATAC-seq Fragment Overlap

Description

Usage

Value

Arguments