/read_cellranger_operator

Imports cell ranger (10X) single-cell datasets.

Primary LanguageR

Read Cell Ranger

Description

The Read Cell Ranger operator reads Cell Ranger output files into Tercen.

Usage
Input projection .
column factor, documentId of the ZIP file containing Cell Ranger output files
Input parameters .
proportion numeric, proportion of data (barcodes) to downsample
Output relations .
count count
barcode barcode ID
gene_name1 gene ID (Ensembl)
gene_name2 gene ID (Symbol)
sample_id sample ID (subfolder name)
Details

The operator expects a ZIP file containing output files from Cell Ranger (barcodes, features and matrix files). If multiple subfolders are found, each of them will be read as a different sample (sample_id column).

See also

scRNAseq_QC_operator