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-`--seed INT`: seed for random generators (if 0, will be autogenerated). Giving the same seed will produce same results. [default: 0]
-`--paf-ref`: in paf output, use the reference as the target instead of read (needs -c)
-`--cdna`: generate cDNA reads (only valid with dna profiles and the reference must a transcriptome, experimental)
-`--trans-count FILE`: simulate relative abundance using specified 2-column tsv with first column containing transcript name and the second containing the count (only for direct-rna and cDNA, experimental)
-`--trans-count FILE`: simulate relative abundance using specified 2-column tsv with first column containing transcript name and the second containing the count (only for direct-rna and cDNA, experimental). You may generate this a test fatq dataset using minimap2, for example, `minimap2 -cx map-ont transcripts.fa reads.fastq --secondary=no -t20 -uf | cut -f 6 | sort | uniq -c | awk '{print$2"\t"$1}'`.
-`--trans-trunc=yes/no`: simulate transcript truncation (only for direct-rna and cDNA, experimental) [default: no]
Developer options (which are not much tested and error handling) are as below:
