metacell2_anndata_2_supercell

Convert Metacells (Metacell-2) to Super-cell like object

Aggregates large single-cell data into metacell dataset by merging together gene expression of very similar cells. 'SuperCell' uses 'velocyto.R' <doi:10.1038/s41586-018-0414-6> <https://github.com/velocyto-team/velocyto.R> for RNA velocity. We also recommend installing 'scater' Bioconductor package <doi:10.18129/B9.bioc.scater> <https://bioconductor.org/packages/release/bioc/html/scater.html>.

Leonard Herault

SuperCell

Simplification of scRNA-Seq Data by Merging Together Similar
Cells

Mariia Bilous

metacell2_anndata_2_supercell function

<dl><dt>adata</dt>
<dd>anndata object of metacells (the output of <a href="https://metacells.readthedocs.io/en/latest/_modules/metacells/pipeline/collect.html#collect_metacells"><code>collect_metacells()</code></a>)</dd>
<dt>obs.sc</dt>
<dd>a dataframe of the single-cell anndata object used to compute metacells (anndata after applying <a href="https://metacells.readthedocs.io/en/latest/_modules/metacells/pipeline/divide_and_conquer.html#divide_and_conquer_pipeline"><code>divide_and_conquer_pipeline()</code></a> function)</dd></dl>

Arguments

Convert Metacells (Metacell-2) to Super-cell like object — metacell2_anndata_2_supercell

<dl>

<dt>adata</dt>
<dd>anndata object of metacells (the output of <a href='https://metacells.readthedocs.io/en/latest/_modules/metacells/pipeline/collect.html#collect_metacells'><code>collect_metacells()</code></a>)</dd>


<dt>obs.sc</dt>
<dd>a dataframe of the single-cell anndata object used to compute metacells (anndata after applying <a href='https://metacells.readthedocs.io/en/latest/_modules/metacells/pipeline/divide_and_conquer.html#divide_and_conquer_pipeline'><code>divide_and_conquer_pipeline()</code></a> function)</dd>

</dl>

metacell2_anndata_2_supercell: Convert Metacells (Metacell-2) to Super-cell like object

Description

Usage

Value

Arguments