add more details and steps #2
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antgonza
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Sep 11, 2025
data/templates/10.minimap2_mapping
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Can you remove these extra blank lines?
| input=$(head -n $step {{output}}/file_list.txt | tail -n 1) | ||
| fn=`basename ${input}` | ||
| hifiasm_meta -t 60 -o {{output}}/step-1/${fn} ${input} | ||
| step=${SLURM_ARRAY_TASK_ID} ##1000_2, 1000_1 |
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Can you remove the ##? or add better comments?
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| ### extract fasta id for all the genomes in the split folder | ||
| ### Note: if there are no circular genomes, no *.fa files will be generated. The circular_id.txt will be empty |
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Can you add the comments with only one # ?
data/templates/7.checkm_batch.sbatch
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| cp ${name}_checkm_table.txt step-7 | ||
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add dereplication, minimap2 to dereplicated MAGs.