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BUSCO/en: Difference between revisions
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== Available versions == | == Available versions == | ||
Recent versions are available as wheels. Older versions are available as a module | Recent versions are available as wheels. Older versions are available as a module; please see the [[#Modules|Modules]] section below. | ||
To see the latest available version, run | To see the latest available version, run | ||
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{{Command|busco --offline --in genome.fna --out TEST --lineage_dataset bacteria_odb10 --mode genome --cpu ${SLURM_CPUS_PER_TASK:-1} --download_path busco_download/}} | {{Command|busco --offline --in genome.fna --out TEST --lineage_dataset bacteria_odb10 --mode genome --cpu ${SLURM_CPUS_PER_TASK:-1} --download_path busco_download/}} | ||
Command to run multiple genomes that would be saved in the <i>genome/</i> directory (in this example, genome folder would need to be in the current directory; otherwise, you need to provide the full path): | Command to run multiple genomes that would be saved in the <i>genome/</i> directory (in this example, the <i>genome/</i> folder would need to be in the current directory; otherwise, you need to provide the full path): | ||
{{Command|busco --offline --in genome/ --out TEST --lineage_dataset bacteria_odb10 --mode genome --cpu ${SLURM_CPUS_PER_TASK:-1} --download_path busco_download/}} | {{Command|busco --offline --in genome/ --out TEST --lineage_dataset bacteria_odb10 --mode genome --cpu ${SLURM_CPUS_PER_TASK:-1} --download_path busco_download/}} | ||
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<b>9.</b> Advanced users may want to use Augustus parameters: <code>--augustus_parameters="--yourAugustusParameter"</code>. | <b>9.</b> Advanced users may want to use Augustus parameters: <code>--augustus_parameters="--yourAugustusParameter"</code>. | ||
*Copy the Augustus < | *Copy the Augustus <i>config</i> directory to a writable location. | ||
{{Command|cp -r $EBROOTAUGUSTUS/config $HOME/augustus_config}} | {{Command|cp -r $EBROOTAUGUSTUS/config $HOME/augustus_config}} | ||