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Overview

  • Dorado: Dorado is a high-performance, easy-to-use, open source basecaller for Oxford Nanopore reads.

Using

Use the module name doradob to discover versions available and to load the application.

Multicore

The various dorado sub-commands can be run using multiple threads/cores. Look at each specific sub-command to see what is available, for example: 

[2024-11-05 09:55:34.878] [info] Running: "aligner" "-h"
Usage: dorado aligner [--help] [--recursive] [--output-dir VAR] [--emit-summary] [--bed-file VAR] [--threads VAR] [--max-reads VAR] [--verbose]... [--mm2-opts VAR] index reads
...
Optional arguments:
...
  -t, --threads     number of threads for alignment and BAM writing (0=unlimited). [nargs=0..1] [default: 0]
...

GPU

Under the Platforms documentation section it details that “Dorado is heavily-optimised for Nvidia A100 and H100 GPUs and will deliver maximal performance on systems with these GPUs.“ If you require assistance testing this please submit a ticket via our Service Portal (with test data) and we will happy work with you on any issue.

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