The ChromatinAssay object is an extended Assay
for the storage and analysis of single-cell chromatin data.
rangesA GRanges object describing the
genomic location of features in the object
motifsA Motif object
fragmentsA list of Fragment objects.
seqinfoA Seqinfo object containing basic
information about the genome sequence used.
annotationA GRanges object containing
genomic annotations
biasA vector containing Tn5 integration bias information (frequency of Tn5 integration at different kmers)
positionEnrichmentA named list of matrices containing positional enrichment scores for Tn5 integration (for example, enrichment at the TSS)
linksA GRanges object describing linked
genomic positions, such as co-accessible sites or enhancer-gene regulatory
relationships. This should be a GRanges object, where the start and
end coordinates are the two linked genomic positions, and must contain a
"score" metadata column.