Supplementary data for Phylogenomics of Aplacophora (Mollusca, Aculifera) and a solenogaster without a foot

This archive contains assemblies for all transcriptomes sequenced for this project ("Assembled_transcriptomes" folder), input and output files of all phylogenetic analyses ("Phylogenetic_analysis_results" folder), the custom Solenogastres HaMStR core ortholog set produced for this study ("Solenogastres_hmmer3_core_ortholog_set_for_HaMStR" folder), a file with all COI sequences extracted from the newly sequenced transcriptomes ("COI_mined_from_transcriptomes.fas"), and the script used to process the HaMStR output and generate the datasets analyzed in this study ("Dataset_assembly_script.sh").