ChromHMM Report

Input Directory: Chromatin_Model/Binarized_Data
Output Directory: Chromatin_Model/Model
Number of States: 15
Assembly: galGal_6tissues
Full ChromHMM command: LearnModel -p 24 -r 5000 -init random -l Chromatin_Model/Chromosome_Lengths.txt Chromatin_Model/Binarized_Data Chromatin_Model/Model 15 galGal_6tissues

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

  • Combined_15_999 Segmentation File (Four Column Bed File)

    Custom Tracks for loading into the UCSC Genome Browser:
  • Combined_15_999 Browser Custom Track Dense File
  • Combined_15_999 Browser Custom Track Expanded File

    State Enrichments

    Combined_15_999 Enrichments


  • Combined_15_999 Overlap Enrichment SVG File
  • Combined_15_999 Overlap Enrichment Tab-Delimited Text File

  • Combined_15_999_TSS_neighborhood Enrichment SVG File
  • Combined_15_999_TSS_neighborhood Enrichment Tab-Delimited Text File

  • Combined_15_999_TES_neighborhood Enrichment SVG File
  • Combined_15_999_TES_neighborhood Enrichment Tab-Delimited Text File