RNA_seq_ of_lobster_larva_55
RNA extraction was performed according to Novogenes internal protocols, which include an automated homogenization method followed by a filtration column. Sample integrity and quantity were determined using an Agilent Bioanalyzer 2100 and sample purity was checked using a Nanodrop. Libraries were prepared using poly-A enrichment to select for mRNA following Novogenes internal quality control assays. Sequencing was done using the Illumina NovaSeq platform. Samples were sequenced as paired-end reads of 150 base pairs, and those reads in the fastq format were processed for downstream analyses or cleaned by removing reads containing adaptors, reads with >10% uncertain nucleotides, and reads with >50% low quality nucleotides, defined as Base Quality < 5. Reads were aligned to a reference sequence for American lobster (Polinski et al., 2021) using HISAT2 (version 2.0.5) and assembled into transcripts using StringTie (version 1.3.3b). Raw counts of map reads were aggregated using featureCounts (version 1.5.0-p3)