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/default_init/redo/E081/n15
Number of States: 15
Assembly: std_hg19
Full ChromHMM command: LearnModel -r 400 -b 200 -f E081.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/default_init/redo/E081/n15 15 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

  • E081_15_coreMarks Segmentation File (Four Column Bed File)

    Custom Tracks for loading into the UCSC Genome Browser:
  • E081_15_coreMarks Browser Custom Track Dense File
  • E081_15_coreMarks Browser Custom Track Expanded File

    State Enrichments

    E081_15_coreMarks Enrichments


  • E081_15_coreMarks Overlap Enrichment SVG File
  • E081_15_coreMarks Overlap Enrichment Tab-Delimited Text File

  • E081_15_coreMarks_TES_neighborhood Enrichment SVG File
  • E081_15_coreMarks_TES_neighborhood Enrichment Tab-Delimited Text File

  • E081_15_coreMarks_TSS_neighborhood Enrichment SVG File
  • E081_15_coreMarks_TSS_neighborhood Enrichment Tab-Delimited Text File