ChromHMM annotations predicted from GECSI from Jason Ernst Lab (jason.ernst@ucla.edu) (Jingyuan Fu and Jason Ernst)
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First level subdirectory files correspond to per-epigenome GECSI-predicted chromatin state annotations on 449 epigenomes from IHEC EpiAtlas RNA-seq data but no ChIP-seq data available. GECSI model was trained on 414 epigenomes that had fully observed experimental data of H3K4me1, H3K4me3, H3K9ac, H3K27ac, H3K27me3, H3K36me3 and RNA-seq. These files include:
File ./bed/*.bed.gz - per-epigenome chromatin state annotations in a 9 column bed format (chrom, chromStart, chromEnd, name, score, strand, thickStart, thickEnd, itemRgb). A checksum file is included in this directory.
File ./bigbed/*.bb - per-epigenome chromatin state annotations in a bigbed format. A checksum file is included in this directory.
File ./posterior/*.txt.gz - per-epigenome chromatin state posterior probabilities in txt format. A checksum file is included in this directory.

Files under directory ./Supplementary_fullobs_GECSI_pred/ correspond to per-epigenome GECSI-predicted chromatin state annotation tracks on 414 fully observed epigenomes from IHEC. Details please check ./Supplementary_fullobs_GECSI_pred/readme.txt