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Table 4 Performance measures for bartab:

From: BARCRAWL and BARTAB: software tools for the design and implementation of barcoded primers for highly multiplexed DNA sequencing

    Execution Time (sec.)1
Sequences Processed Split Sequences (-spl option) De-replicate Sequences (-rep option) System A 2 System B 3 System C 4 System D 5
400,000 - - 411 (13) 65 (0.82) 145 (8.6) 40 (0.0)
400,000 + - 993 (193) 71 (2.07) 178 (3.1) 41 (0.0)
400,000 - + 434 (5.5) 76 (0.75) 151 (0.8) 47 (1.2)
400,000 + + 927 (65) 78 (0.75) 197 (9.1) 48 (0.6)
800,000 - - 900 (4.8) 133 (0.98) 289 (14) 81 (0.0)
800,000 + - 1909 (225) 142 (3.9) 462 (9.0) 89 (6.8)
800,000 - + 917 (29) 148 (2.3) 299 (1.4) 97 (2.6)
800,000 + + 2023 (109) 154 (1.6) 465 (0.5) 106 (10)
1,600,000 - - 1923 (69) 265 (2.2) 573 (11) 164 (2.0)
1,600,000 + - 3764 (74) 285 (4.2) 1475 (278) 255 (64)
1,600,000 - + 1909 (88) 304 (1.7) 623 (15) 197 (7.6)
1,600,000 + + 4938 (968) 313 (4.3) 1482 (129) 281 (62)
3,200,000 - - n.d. 549 (8.4) 1161 (35) 415 (34)
3,200,000 + - n.d. 587 (13) 3729 (469) 566 (156)
3,200,000 - + n.d. 622 (3.6) 1266 (21) 457 (29)
3,200,000 + + n.d. 813 (5.8) 3494 (231) 691 (232)
  1. 1 Elapsed time of execution: Mean (St. Dev) seconds.
  2. 2 Executed on a 2 GHz Intel Core Duo MacBook Pro. 1 GB 667 MHz DDR2 SDRAM. Mac OSX version 10.5.6.
  3. 3 Executed on a 2.6 GHz AMD Phenom 9950 Agena Quad-Core Processor. 4 GB 800 MHz DDR2 FB-DIMM Ubuntu 8.1 operating system.
  4. 4 Executed on a Macintosh workstation with 2 × 3 GHz Quad-Core Intel Xeon processors. 8 GB 800 MHz DDR2 FB-DIMM. Mac OS X Server version 10.5.4
  5. 5 Executed on a workstation with 2 × 3 GHz Dual-Core Intel Xeon 5160 processors. 12 GB 800 MHz DDR2 FB-DIMM. Fedora Core 5 operating system.