DsATAC

A class for storing ATAC-seq accessibility data inherits from DsAcc

Slots

fragments

GRanges object storing sequencing fragments. Alternativily pointers to files in which this data isf stored as R data object

counts

List of count matrices for each summarized region type (dimension: regions X samples). Depending on the settings for the slots diskDump and sparseCounts, the matrices are either (a) regular matrices, (b) HDF5Array/DelayedArray or (c) sparse matrices.

countTransform

list of character vectors specifying which transformations have been applied to the count matrices

sparseCounts

Flag indicating whether count data will be stored as sparse matrices rather than regular matrices

diskDump.fragments

Flag indicating whether fragment data will be kept on disk rather than in main memory.

Author

Fabian Mueller