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Table 5 Memory and time usage of the different tools. Miniasm, OPTICALKERMIT, and Canu (CONSENT) use CONSENT corrected reads and the time and memory used for the correction is not included in the statistics. The row titled Canu shows the memory and time usage of Canu with the original reads. Although in this case we allowed Canu to use its own read correction, here we show the memory usage and runtime of Canu without the correction step for fairer comparison. The correction step of Canu took 2 h, 22 h, and 29 h of time and 5 GB, 11 GB, and 12 GB memory on S. cerevisiae, C. elegans, and A. thaliana, respectively

From: Optical map guided genome assembly

S. cerevisiae assembly memory and time usage

 

Memory [MB]

Time [hh:mm:ss]

miniasm

4 542

00:06:05

OpticalKermit

4 542

00:06:43

Canu (CONSENT)

2 268

00:34:31

Canu

2 247

00:33:14

C. elegans assembly memory and time usage

 

Memory [MB]

Time [hh:mm:ss]

miniasm

14 592

00:55:18

OpticalKermit

14 592

01:08:18

Canu (CONSENT)

7 970

06:55:09

Canu

11 713

07:28:55

A. thalianaassembly memory and time usage

 

Memory [MB]

Time [hh:mm:ss]

miniasm

15 285

06:09:29

OpticalKermit

15 413

07:06:39

Canu (CONSENT)

8 255

17:43:56

Canu

10 901

23:53:23