The ChromatinAssay object is an extended
for the storage and analysis of single-cell chromatin data.
GRanges object describing the
genomic location of features in the object
A list of
Seqinfo object containing basic
information about the genome sequence used.
GRanges object containing
genomic annotations. This should be a GRanges object with the following
tx_id: Transcript ID
gene_name: Gene name
gene_id: Gene ID
gene_biotype: Gene biotype (e.g. "protein_coding", "lincRNA")
type: Annotation type (e.g. "exon", "gap")
A vector containing Tn5 integration bias information (frequency of Tn5 integration at different kmers)
A named list of matrices containing positional enrichment scores for Tn5 integration (for example, enrichment at the TSS)
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.