Genome assembly
Before assembly, LoRDEC (Salmela & Rivals, 2014) was applied for
calibration of the long sequencing reads along with the clean short
reads. Subsequently, minimap2 (Li, 2018) was employed to assemble the
corrected long reads to contigs. Genome polishing was preformed two
rounds with different strategies. In brief, for the first round, the
contigs were polished via Racon v1.3.1 (Vaser et al., 2017) based on
uncorrected Nanopore long reads; for the second round, the clean short
reads were used to polish the contigs with pilon (Walker et al., 2014).
After heterozygosity reducing with Redundans (Pryszcz & Gabaldón,
2016), we finally obtained a draft genome for the striped catfish.