Figure 2.

ReadDB performance compared to other formats. ReadDB's performance nearly matches that of local BAM or BigWig files on the medium and large datasets. Each method was used to query n randomly chosen regions (of size 1 kb, 10 kb, or 100 kb) and the resulting average query time is shown in milliseconds. The client and server machines were connected by gigabit ethernet. ReadDB and the BAM tests retrieved individual hits; BigWig retrieved a histogram in 10 bp bins as the BigWig format cannot store individual read positions. bamlocal and wiglocal queried files on local disks rather than on a remote server.

Rolfe and Gifford BMC Bioinformatics 2011 12:278   doi:10.1186/1471-2105-12-278
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