@include "atac/_peak_caller.mro"

call _PEAK_CALLER(
    sample_id       = "count-NYU070",
    sample_desc     = "count-NYU070",
    assay           = "arc",
    reference_path  = "/gpfs/data/sequence/cellranger-refdata/refdata-cellranger-arc-GRCh38-2020-A",
    fragments       = "/gpfs/data/sequence/results/aifantislab/2021-runs/2021-07-27/cellranger/count-NYU070/SC_ATAC_GEX_COUNTER_CS/SC_ATAC_GEX_COUNTER/_ATAC_MATRIX_COMPUTER/MARK_ATAC_DUPLICATES/fork0/join-u45960dc732/files/fragments.tsv.gz",
    fragments_index = "/gpfs/data/sequence/results/aifantislab/2021-runs/2021-07-27/cellranger/count-NYU070/SC_ATAC_GEX_COUNTER_CS/SC_ATAC_GEX_COUNTER/_ATAC_MATRIX_COMPUTER/MARK_ATAC_DUPLICATES/fork0/join-u45960dc732/files/fragments.tsv.gz.tbi",
    custom_peaks    = null,
    qval            = null,
    disable_bigwig  = false,
)
