The directories contain imputed DNA Methylation values of WGBS data from ChromImpute. Methylation grids based on cov3 were used for the imputation.
The version of IDs for the epigenome (portion after period) was set to matched the ChIP-seq data.

The directories are as follows:
DNAMethyl - one bigwig file (.bw) per epigenome 
IHEC_format_imputed - grid of DNA methylation with one file per chromosome following the new IHEC format used for observed data
REMC_format_imputed - grid of DNA methylation with one file per chromosome following the previous REMC format used for observed data

Only chr1-22 and chrX were imputed.

Imputed data is available for the 1698 which there is at least one ChIP-seq experiment and the epigenome was not among the six epigenomes with ChIP-seq dropped from the integrative analysis for QC reasons (IHECRE00000833, IHECRE00003135, IHECRE00003202, IHECRE00003229, IHECRE00003326, IHECRE00003355). WGBS for IHECRE00000833 was used as part of the imputation.

More information about ChromImpute can be found here:
Ernst J, Kellis M. Large-scale imputation of epigenomic datasets for systematic annotation of diverse human tissues. Nature Biotechnology, 33:364-376, 2015.

Within each sub-directory there is a .md5 with the checksum for all the .bw files in the subdirectory.

Contact Jason Ernst (jason.ernst@ucla.edu) with any questions about the imputed data.