ExtractGEOInfo

The goal of 'scfetch' is to access and format single-cell RNA-seq datasets. It can be used to download single-cell RNA-seq
datasets from widely used public resources, including GEO <https://www.ncbi.nlm.nih.gov/geo/>, Zenodo <https://zenodo.org/>,
CELLxGENE <https://cellxgene.cziscience.com/>, Human Cell Atlas <https://www.humancellatlas.org/>, PanglaoDB <https://panglaodb.se/index.html>
and UCSC Cell Browser <https://cells.ucsc.edu/>. And, it can also be used to perform object conversion between SeuratObject <https://satijalab.org/seurat/>,
loom <http://loompy.org/>, h5ad <https://scanpy.readthedocs.io/en/stable/>, SingleCellExperiment <https://bioconductor.org/packages/release/bioc/html/scran.html>,
CellDataSet <http://cole-trapnell-lab.github.io/monocle-release/> and cell_data_set <https://cole-trapnell-lab.github.io/monocle3/>.

Yabing Song

scfetch

Access and Format Single-Cell RNA-Seq Datasets from Public
Resources

ExtractGEOInfo function

<dl><dt>pf.obj</dt>
<dd>GEO object of platform.</dd>
<dt>sample.wise</dt>
<dd>Logical value, whether to extract sample-wise information. Default: FALSE.</dd></dl>

Arguments

Extract GEO Study Information. — ExtractGEOInfo

<dl>

<dt>pf.obj</dt>
<dd>GEO object of platform.</dd>


<dt>sample.wise</dt>
<dd>Logical value, whether to extract sample-wise information. Default: FALSE.</dd>

</dl>

ExtractGEOInfo: Extract GEO Study Information.

Description

Usage

Value

Arguments