These are the parameters that I've given the pipeline: input: "/scratch/midway3/mnolasco/nfcore_HiC_WTheart_Okhovat2023/SampleSheet_WTheart_Okhovat2023.csv" outdir: "/scratch/midway3/mnolasco/nfcore_HiC_WTheart_Okhovat2023/output" email: "mnolasco@uchicago.edu" multiqc_title: "multiqc" genome: "mm10" igenomes_base: "/project/imoskowitz/shared/annotations/iGenomes" fasta: /project/imoskowitz/shared/annotations/iGenomes/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa bwt2_index: /project/imoskowitz/shared/annotations/iGenomes/Mus_musculus/UCSC/mm10/Sequence/Bowtie2Index digestion: "arima" restriction_site: "^GATC,G^ANTC" chromosome_size: "/project/imoskowitz/shared/annotations/iGenomes/Mus_musculus/UCSC/mm10/Sequence/mm10.chrom.sizes" save_reference: true split_fastq: false fastq_chunks_size: 20000000 save_aligned_intermediates: false keep_dups: false keep_multi: false max_insert_size: 600 min_insert_size: 100 max_restriction_fragment_size: 100000 min_restriction_fragment_size: 100 save_interaction_bam: true save_pairs_intermediates: false bin_size: "5000" hicpro_maps: true res_zoomify: "750" save_raw_maps: false tads_caller: "hicexplorer,insulation" res_tads: "10000" skip_dist_decay: true skip_compartments: true skip_balancing: true skip_mcool: true skip_multiqc: false