ChromHMM Report

Input Directory: /broad/compbio/anshul/projects/roadmap/segmentations/binary/coreMarks/binaryData
Output Directory: /broad/compbio/anshul/projects/roadmap/segmentations/models/coreMarks/parallel/indiv/E001/n12
Number of States: 12
Assembly: std_hg19
Full ChromHMM command: LearnModel -b 200 -f E001.filenames -i coreMarks -l /broad/compbio/anshul/projects/encode/rawdata/annotations/genomeSize/hg19.genome /broad/compbio/anshul/projects/roadmap/segmentations/binary/coreMarks/binaryData /broad/compbio/anshul/projects/roadmap/segmentations/models/coreMarks/parallel/indiv/E001/n12 12 std_hg19

Model Parameters


  • Emission Parameter SVG File
  • Emission Parameter Tab-Delimited Text File

  • Transition Parameter SVG File
  • Transition Parameter Tab-Delimited Text File

  • All Model Parameters Tab-Delimited Text File

    Genome Segmentation Files

  • E001_12_coreMarks Segmentation File (Four Column Bed File)

    Custom Tracks for loading into the UCSC Genome Browser:
  • E001_12_coreMarks Browser Custom Track Dense File
  • E001_12_coreMarks Browser Custom Track Expanded File

    State Enrichments

    E001_12_coreMarks Enrichments


  • E001_12_coreMarks Overlap Enrichment SVG File
  • E001_12_coreMarks Overlap Enrichment Tab-Delimited Text File