Index

Represents index for a single reference

Members

Functions

getMinimumOffset
VirtualOffset getMinimumOffset(int position)

Get (approximate) virtual offset of the first alignment overlapping position

Variables

bins
Bin[] bins;

Information about bins

ioffsets
VirtualOffset[] ioffsets;

Virtual file offsets of first alignments overlapping 16384-byte windows on the reference sequence. This linear index is used to reduce amount of file seeks for region queries, since with its help one can reduce the number of chunks to be investigated based on their end position.

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