Table 6 Comparison of performance for applying chain of filters to separate by chromosomes (chain)
From: BAMQL: a query language for extracting reads from BAM files
System | User | Wall | Code | |
|---|---|---|---|---|
Tool | time (s) | time (s) | time (s) | (bytes) |
BAMQL | 4.83 | 305.66 | 345.19 | 123 |
C | 9.31 | 385.05 | 422.02 | 1027 |
Perl | 11.18 | 2552.69 | 2585.88 | 800 |
Python | 11.18 | 576.44 | 643.36 | 907 |
SAMtools | 6.71 | 302.15 | 329.63 | 156 |
Sambamba | 8.45 | 441.58 | 145.49 | 174 |