A colleague has developed a machine learning tool to perform enhancer prediction based on histone mark ChIP-seq data.
I would like to test the tool by performing enhancer calling in a tissue-specific fashion, and I'm looking for publicly available histone modification ChIP-seq data. If possible I'm hoping to find bam/sam alignments as the tool seems to require them. I believe wig/bigWig/bigBed tracks will not work.
Are there any such datasets? I have started looking at ENCODE and Roadmap Epigenomics data, but I'm having difficulty finding bam files for the data. For the Roadmap Epigenomics project, I did find .bed files of the alignments, which means I could theoretically generate bam files with bedtools. Is this my only option?
In genera, if somebody knows the location/availability of tissue specific histone ChIP-seq bam tracks that would be really appreciated.