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Table 3 Performance information returned by the Guppy basecaller (ver 3.4.5+fb1fbfb) at the end of the experiment (caller time, called samples and calling speed)

From: LPMX: a pure rootless composable container system

Host

Time (s)

# Samples called

# Sample per second

Bare Host

1344

18,614,227,490

1.38475e+07

LPMX

1343

18,614,227,490

1.38643e+07

  1. The host is equipped with an Intel(R) Xeon(R) CPU X5650 @2.67 GHz with 24 cores, GeForce GTX 1080 GPU, 192 GB RAM memory, and its driver info is NVIDIA-SMI: 440.64.00 / Driver ver 440.64.00 / CUDA ver 10.2. We used the Chip137 IVT NA12878 RNA dataset (https://s3.amazonaws.com/nanopore-human-wgs/rna/links/NA12878-IVT-RNA_All.files.txt), which contains 313 fast5 split files with a total size of approximately 35 GB
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BMC Bioinformatics

ISSN: 1471-2105

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