Targeted exon capture of Crinoidea: Horaeometra duplex
gDNA was extracted using DNeasy blood and tissue kits (Qiagen) and sheared using a Covaris sonicator. Kappa Hyperprep kits (Roche) were used for library construction following the manufactures protocol and using custom iTrue style barcodes following Glenn et al. 2016. Target DNA was enriched using the myBaits custom bait kit following V3 of the manufacturers protocol. Samples were pooled into groups of 7 or 8 samples with similar library concentrations. Enriched libraries were sequenced on an illumina MiSeq run (300 PE) with V3 Chemistry conducted at the IGM Genomics Center, University of California, San Diego, La Jolla, CA. Adaptor sequences and low-quality reads were removed with Trimmomatic.