Fig. 3

SCtools performance. a Query time from a MultiChain stream depends only on the number of entries in that stream, i.e., it is not affected by the number of reads stored in other streams in the chain. b In a single-node SAMchain network, we measured the time performance of queryReads, queryDepth, queryDepth and MAPQ, and pileup for 1-bp queries. Each module performs comparably, increasing linearly as the number of reads stored in the chain increases. c We measured the performance of queryReads for a SAMchain storing ~ 10,000,000 reads at different bin sizes. SAMchains with smaller bin sizes yield faster query times, but take longer to build. d We measured the effect of the range queried on performance time. Larger ranges are shown to yield longer query times. We showed the times of SAMchain (red) compared to a naive, single-stream implementation (blue). e We checked the output of each SCtools module compared to the equivalent SAMtools module