inst/scripts/2.6.0/make-zhao-immune-liver-metadata.R

In drisso/scRNAseq: Collection of Public Single-Cell RNA-Seq Datasets

write.csv(file="../../extdata/2.6.0/metadata-zhao-immune-liver.csv",
    data.frame(
        Title = sprintf("Zhao immune liver %s", c("counts", "colData", "rowData")),
        Description = sprintf("%s for the Zhao immune liver single-cell RNA-seq dataset", 
            c("Count matrix", "Per-cell metadata", "Per-gene metadata")),
        RDataPath = file.path("scRNAseq", "zhao-immune-liver", "2.6.0", 
            c("counts.rds", "coldata.rds", "rowdata.rds")),
        BiocVersion="3.13",
        Genome="hg38",
        SourceType=c("MTX", "TSV", "TSV"),
        SourceUrl="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE125188",
        SourceVersion=c(
            "GSE125188_CD45+_matrix.mtx.gz",
            "GSE125188_CD45+_barcodes.tsv.gz;GSE125188_CD45+_cell_identities.tsv.gz;GSE125188_ASC_cell_identities.tsv.gz;GSE125188_B_cell_identities.tsv.gz;GSE125188_Mo_cell_identities.tsv.gz;GSE125188_NKT_cell_identities.tsv.gz",
            "GSE125188_CD45+_genes.tsv.gz"),
        Species="Homo sapiens",
        TaxonomyId="9606",
        Coordinate_1_based=NA,
        DataProvider="GEO",
        Maintainer="Aaron Lun <infinite.monkeys.with.keyboards@gmail.com>",
        RDataClass=c("dgCMatrix", "DFrame", "DFrame"),
        DispatchClass="Rds",
        stringsAsFactors = FALSE
    ),
    row.names=FALSE)