getCountMatrix

getCountMatrix,Pagoda2-method

getCountMatrix,seurat-method

getCountMatrix,Seurat-method

Wires together large collections of single-cell RNA-seq datasets, which allows for both the identification of recurrent cell clusters and the propagation of information between datasets in multi-sample or atlas-scale collections. 'Conos' focuses on the uniform mapping of homologous cell types across heterogeneous sample collections. For instance, users could investigate a collection of dozens of peripheral blood samples from cancer patients combined with dozens of controls, which perhaps includes samples of a related tissue such as lymph nodes. This package interacts with data available through the 'conosPanel' package, which is available in a 'drat' repository. To access this data package, see the instructions at <https://github.com/kharchenkolab/conos>. The size of the 'conosPanel' package is approximately 12 MB.

Evan Biederstedt

conos

Clustering on Network of Samples

Viktor Petukhov

Nikolas Barkas

Peter Kharchenko

Weiliang Qiu

getCountMatrix function

<dl><dt>sample</dt>
<dd>sample from which to get the count matrix</dd>
<dt>transposed</dt>
<dd>boolean Whether the count matrix should be transposed (default=FALSE)</dd></dl>

Arguments

Access count matrix from sample — getCountMatrix

<dl>

<dt>sample</dt>
<dd>sample from which to get the count matrix</dd>


<dt>transposed</dt>
<dd>boolean Whether the count matrix should be transposed (default=FALSE)</dd>

</dl>

Access count matrix from sample

getCountMatrix: Access count matrix from sample

Description

Usage

Arguments