Horseshoe crab microbiome paper supplemental scripts Description of files Filename Description DESeq2.R Run differential abundance analysis. anovas.R Run between-group significance statistics barplots.R Plot barplots (Figures S2-7) diversityBoxplots.R Plot alpha diversity box/dotplots (Figure 1) filtered_table.qza Qiime2-compatible ASV/OTU table importTSVPhyseq.R Utility script for importing data into phyloseq makeTreeFromDESeqs.sh Use IQtree to make a tree from DE sequences plotDESeq2.R Plot DESeq2 results (Figures 5 and S8) rep-seqs.qza Qiime2-compatble representative sequences. run_this.R Initialize phyloseq objects contained in folder named "exported" silva_taxonomy.qza Qiime2-compatible taxonomy file tax_glom_fast.R Faster tax_glom function top10pie.R Plot top 10 most abundant genera top20pie.R Plot top 20 most abundant genera