inst/scripts/1.0.0/make-tenx-atac-1.2.0-atac_pbmc_1k_nextgem.R

In LTLA/DropletTestFiles: Test Files for Single-Cell Droplet Utilities

base.url <- "https://cf.10xgenomics.com/samples/cell-atac/1.2.0/atac_pbmc_1k_nextgem"

files <- read.csv(text="name,description,output
atac_pbmc_1k_nextgem_filtered_peak_bc_matrix.tar.gz,peak count matrix,peak.tar.gz
atac_pbmc_1k_nextgem_filtered_peak_bc_matrix.h5,peak HDF5 matrix,peak.h5
atac_pbmc_1k_nextgem_filtered_tf_bc_matrix.tar.gz,motif count matrix,motif.tar.gz
atac_pbmc_1k_nextgem_filtered_tf_bc_matrix.h5,motif HDF5 matrix,motif.h5")

prefix <- "tenx-atac-1.2.0-atac_pbmc_1k_nextgem"
version <- "1.0.0"

out <- DropletTestFiles:::download10xData(
    files=files,
    base=base.url,
    prefix=prefix,
    version=version,
    short="10X ATAC PBMC 1k",
    long="10X Genomics single-cell ATAC-seq for 1K PBMCs from a healthy donor (Next GEM v1.1 chemistry, CellRanger 1.2.0)",
    BiocVersion="3.12",
    Genome="hg38",
    SourceUrl="https://support.10xgenomics.com/single-cell-atac/datasets/1.2.0/atac_pbmc_1k_nextgem"
)

write.csv(out, row.names=FALSE,
    file=file.path("../../extdata", version, paste0("metadata-", prefix, ".csv")))