fasta_file: /oak/stanford/groups/akundaje/marinovg/genomes/hg19/sequence/hg19.fa
task_specs:
  task1:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/A549-MAFK-human-ENCSR541WQI-Rep2.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/A549-MAFK-human-ENCSR541WQI-Rep2.unique.abs_minus.bigWig
    peaks: hg19-peak-files/A549-MAFK-human-ENCSR541WQI-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task2:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/A549-MAFK-human-ENCSR541WQI-Rep3.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/A549-MAFK-human-ENCSR541WQI-Rep3.unique.abs_minus.bigWig
    peaks: hg19-peak-files/A549-MAFK-human-ENCSR541WQI-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task3:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/GM12878-MAFK-human-ENCSR000DYV-Rep1.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/GM12878-MAFK-human-ENCSR000DYV-Rep1.unique.abs_minus.bigWig
    peaks: hg19-peak-files/GM12878-MAFK-human-ENCSR000DYV-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task4:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/GM12878-MAFK-human-ENCSR000DYV-Rep2.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/GM12878-MAFK-human-ENCSR000DYV-Rep2.unique.abs_minus.bigWig
    peaks: hg19-peak-files/GM12878-MAFK-human-ENCSR000DYV-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task5:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/H1-hESC-MAFK-human-ENCSR000EBS-Rep1.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/H1-hESC-MAFK-human-ENCSR000EBS-Rep1.unique.abs_minus.bigWig
    peaks: hg19-peak-files/H1-hESC-MAFK-human-ENCSR000EBS-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task6:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/H1-hESC-MAFK-human-ENCSR000EBS-Rep2.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/H1-hESC-MAFK-human-ENCSR000EBS-Rep2.unique.abs_minus.bigWig
    peaks: hg19-peak-files/H1-hESC-MAFK-human-ENCSR000EBS-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task7:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/HeLa-S3-MAFK-human-ENCSR000ECK-Rep1.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/HeLa-S3-MAFK-human-ENCSR000ECK-Rep1.unique.abs_minus.bigWig
    peaks: hg19-peak-files/HeLa-S3-MAFK-human-ENCSR000ECK-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task8:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/HeLa-S3-MAFK-human-ENCSR000ECK-Rep2.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/HeLa-S3-MAFK-human-ENCSR000ECK-Rep2.unique.abs_minus.bigWig
    peaks: hg19-peak-files/HeLa-S3-MAFK-human-ENCSR000ECK-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task9:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/HepG2-MAFK-human-ENCSR000EDZ-Rep1.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/HepG2-MAFK-human-ENCSR000EDZ-Rep1.unique.abs_minus.bigWig
    peaks: hg19-peak-files/HepG2-MAFK-human-ENCSR000EDZ-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task10:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/HepG2-MAFK-human-ENCSR000EDZ-Rep2.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/HepG2-MAFK-human-ENCSR000EDZ-Rep2.unique.abs_minus.bigWig
    peaks: hg19-peak-files/HepG2-MAFK-human-ENCSR000EDZ-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task11:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/HepG2-MAFK-human-ENCSR000EEB-Rep1.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/HepG2-MAFK-human-ENCSR000EEB-Rep1.unique.abs_minus.bigWig
    peaks: hg19-peak-files/HepG2-MAFK-human-ENCSR000EEB-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task12:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/HepG2-MAFK-human-ENCSR000EEB-Rep2.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/HepG2-MAFK-human-ENCSR000EEB-Rep2.unique.abs_minus.bigWig
    peaks: hg19-peak-files/HepG2-MAFK-human-ENCSR000EEB-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task13:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/IMR-90-MAFK-human-ENCSR000EFH-Rep1.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/IMR-90-MAFK-human-ENCSR000EFH-Rep1.unique.abs_minus.bigWig
    peaks: hg19-peak-files/IMR-90-MAFK-human-ENCSR000EFH-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task14:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/IMR-90-MAFK-human-ENCSR000EFH-Rep2.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/IMR-90-MAFK-human-ENCSR000EFH-Rep2.unique.abs_minus.bigWig
    peaks: hg19-peak-files/IMR-90-MAFK-human-ENCSR000EFH-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task15:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/K562-MAFK-human-ENCSR000EGX-Rep1.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/K562-MAFK-human-ENCSR000EGX-Rep1.unique.abs_minus.bigWig
    peaks: hg19-peak-files/K562-MAFK-human-ENCSR000EGX-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task16:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/K562-MAFK-human-ENCSR000EGX-Rep2.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/K562-MAFK-human-ENCSR000EGX-Rep2.unique.abs_minus.bigWig
    peaks: hg19-peak-files/K562-MAFK-human-ENCSR000EGX-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task17:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/MCF-7-MAFK-human-ENCSR555PBN-Rep1.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/MCF-7-MAFK-human-ENCSR555PBN-Rep1.unique.abs_minus.bigWig
    peaks: hg19-peak-files/MCF-7-MAFK-human-ENCSR555PBN-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
  task18:
    pos_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/MCF-7-MAFK-human-ENCSR555PBN-Rep2.unique.plus.bigWig
    neg_counts: /oak/stanford/groups/akundaje/marinovg/TF-models/2018-11-05-ENCODE-TF-ChIP-seq-for-BPNet/MCF-7-MAFK-human-ENCSR555PBN-Rep2.unique.abs_minus.bigWig
    peaks: hg19-peak-files/MCF-7-MAFK-human-ENCSR555PBN-optimal_idr.bed
    # optional
    ignore_strand: False
    bias_bigwig:
    bias_model: null
