@include "atac/_peak_caller.mro"

call _PEAK_CALLER(
    sample_id       = "pbmc_granulocyte_sorted_10k",
    sample_desc     = "pbmc_granulocyte_sorted_10k",
    assay           = "arc",
    reference_path  = "/home/Genomes/cellranger/refdata-cellranger-arc-GRCh38-2020-A-2.0.0",
    fragments       = "/home/benjames/data4/10X/pbmc_granulocyte_sorted_10k/SC_ATAC_GEX_COUNTER_CS/SC_ATAC_GEX_COUNTER/_ATAC_MATRIX_COMPUTER/MARK_ATAC_DUPLICATES/fork0/join-u3b7f6ea07b/files/fragments.tsv.gz",
    fragments_index = "/home/benjames/data4/10X/pbmc_granulocyte_sorted_10k/SC_ATAC_GEX_COUNTER_CS/SC_ATAC_GEX_COUNTER/_ATAC_MATRIX_COMPUTER/MARK_ATAC_DUPLICATES/fork0/join-u3b7f6ea07b/files/fragments.tsv.gz.tbi",
    custom_peaks    = null,
    qval            = null,
    disable_bigwig  = false,
)
