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
Due to the specific installation of this application, dftb must be run using srun dftb+ in both the sbatch and salloc processes.