Global_ocean_genomic_analysis

scripts associated with analyzing Malaspina and Tara metabarcoding and metagenomic data

Code used for manuscript entitled "Assessing Patterns of Metazoans in the Global Ocean using Environmental DNA" published in RSOS

Scripts associated with analyzing Malaspina and Tara metabarcoding and metagenomic data

Compare_sample_methods.Rmd

collates net catch of abundance and biomass with DNA smaples from the same location only for Malaspina and also compares data filtering creates correlation plots in supp figs

DNA_abundance_rich_compare_analy.Rmd

compares metagenomic with metabarcode data to see relationship between richness and abudnance creates 2 panel plot in Supplimental figs

amplicon_metacoder_********.Rmd

creates phylogeny trees and tree matrices fro respective cruise and dataset

env_rich_or_abundance_sig_stats_plots.Rmd

Plots to compare metabarcoding richness or metagenome abundances withenvironmental variables creats plot currenlty fig 6 in manuscript

amplicon_stats_*R and amplicon_stats__source.R

scripts for running stats for metabarcoding of 18s data for respective cruis and dataset source tidys data for stats

metagenome_unistats.RM

DNA_boxplot_depth_plots

boxplots fro fig3 and depth plot, fig 2A

DNA_sample_location_map.Rmd

2 panel fig for manuscipt

global_diversity_comp_silva_metagenome.rmd

compare sequences among different databases for common metazoan phyla

amplicons3...R combine_DMAP and DMAP_tydy_2019.R

initial step to tidy data