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OTUvESV

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Name		Name	Last commit message	Last commit date
DissMatricesforPRIMER		DissMatricesforPRIMER
16S_Inoculum_phylasorted_genus_otu_rarefied.csv		16S_Inoculum_phylasorted_genus_otu_rarefied.csv
16S_Inoculum_phylasorted_genus_zotu_rarefied.csv		16S_Inoculum_phylasorted_genus_zotu_rarefied.csv
16S_Inoculum_phylasorted_rarefied_otu.csv		16S_Inoculum_phylasorted_rarefied_otu.csv
16S_Inoculum_phylasorted_zotu_rarefied.csv		16S_Inoculum_phylasorted_zotu_rarefied.csv
16S_otuvzotu.csv		16S_otuvzotu.csv
BarPlots_Family_Inoculum_16S_ESV.R		BarPlots_Family_Inoculum_16S_ESV.R
BarPlots_Family_Inoculum_16S_OTU.R		BarPlots_Family_Inoculum_16S_OTU.R
BarPlots_Family_Inoculum_fungi_ESV.R		BarPlots_Family_Inoculum_fungi_ESV.R
BarPlots_Family_Inoculum_fungi_OTU.R		BarPlots_Family_Inoculum_fungi_OTU.R
BarPlots_Genus_Inoculum_16S_ESV.R		BarPlots_Genus_Inoculum_16S_ESV.R
BarPlots_Genus_Inoculum_16S_OTU.R		BarPlots_Genus_Inoculum_16S_OTU.R
BarPlots_Genus_Inoculum_fungi_ESV.R		BarPlots_Genus_Inoculum_fungi_ESV.R
BarPlots_Genus_Inoculum_fungi_OTU.R		BarPlots_Genus_Inoculum_fungi_OTU.R
Barplots_facetwrap_ESVandOTU.R		Barplots_facetwrap_ESVandOTU.R
Betadiversity_zotusvotus_16SandITS2.R		Betadiversity_zotusvotus_16SandITS2.R
Figure1_alphaandbetadiversity_panel.R		Figure1_alphaandbetadiversity_panel.R
Figure2_richnessandnmdspanel_zotusvotus.R		Figure2_richnessandnmdspanel_zotusvotus.R
Fungi_Inoculum_familysorted_otu.csv		Fungi_Inoculum_familysorted_otu.csv
Fungi_Inoculum_familysorted_zotu.csv		Fungi_Inoculum_familysorted_zotu.csv
Fungi_Inoculum_genus_phylasorted_otu.csv		Fungi_Inoculum_genus_phylasorted_otu.csv
Fungi_Inoculum_genus_phylasorted_zotu.csv		Fungi_Inoculum_genus_phylasorted_zotu.csv
ITS2_OTUvZOTUall.csv		ITS2_OTUvZOTUall.csv
MockCommunity_otuvzotu.R		MockCommunity_otuvzotu.R
NMDS_zotusvotus_16SandITS2_T3.R		NMDS_zotusvotus_16SandITS2_T3.R
OTU_inoculum_bacteria.csv		OTU_inoculum_bacteria.csv
README.md		README.md
Richness_figure_otuvzotu_16SandITS2.R		Richness_figure_otuvzotu_16SandITS2.R
T1_otu_mockandnegs.csv		T1_otu_mockandnegs.csv
T1_zotu_mockandnegs.csv		T1_zotu_mockandnegs.csv
T2_otu_mockandnegs.csv		T2_otu_mockandnegs.csv
T2_zotu_mockandnegs.csv		T2_zotu_mockandnegs.csv
T3_otu_mockandnegs.csv		T3_otu_mockandnegs.csv
T3_zotu_mockandnegs.csv		T3_zotu_mockandnegs.csv
Taxonomycorrelations_ESVandOTU_bacteria_topgenera.R		Taxonomycorrelations_ESVandOTU_bacteria_topgenera.R
Taxonomycorrelations_ESVandOTU_fungi_topgenera.R		Taxonomycorrelations_ESVandOTU_fungi_topgenera.R
Taxonomycorrelations_bacteria_ESV_genusover1.R		Taxonomycorrelations_bacteria_ESV_genusover1.R
Taxonomycorrelations_bacteria_OTU_genusover1.R		Taxonomycorrelations_bacteria_OTU_genusover1.R
Taxonomycorrelations_fungi_ESV_genusover1.R		Taxonomycorrelations_fungi_ESV_genusover1.R
Taxonomycorrelations_fungi_OTU_genusover1.R		Taxonomycorrelations_fungi_OTU_genusover1.R
alpha_otu_T1_fungi.csv		alpha_otu_T1_fungi.csv
alpha_otu_T2_fungi.csv		alpha_otu_T2_fungi.csv
alpha_otu_T3_fungi.csv		alpha_otu_T3_fungi.csv
alpha_otu_survey1and2_fungi.csv		alpha_otu_survey1and2_fungi.csv
alpha_zotuT1_fungi.csv		alpha_zotuT1_fungi.csv
alpha_zotuT2_fungi.csv		alpha_zotuT2_fungi.csv
alpha_zotuT3_fungi.csv		alpha_zotuT3_fungi.csv
alpha_zotu_survey1and2_fungi.csv		alpha_zotu_survey1and2_fungi.csv
alphadiversityFigure_OTUvZOTU.R		alphadiversityFigure_OTUvZOTU.R
bac_T1T2T3_meanrichnessbysite_zotu.csv		bac_T1T2T3_meanrichnessbysite_zotu.csv
bac_T1T2T3_site_all_otu.csv		bac_T1T2T3_site_all_otu.csv
correlationsforotuvzotu.csv		correlationsforotuvzotu.csv
fungi_T1T2T3_meanrichnessbysite_otu.csv		fungi_T1T2T3_meanrichnessbysite_otu.csv
fungi_T1T2T3_meanrichnessbysite_zotu.csv		fungi_T1T2T3_meanrichnessbysite_zotu.csv
getrowsums.R		getrowsums.R
gettaxondd.R		gettaxondd.R
otutab_inoculum_taxonomy_fungi.csv		otutab_inoculum_taxonomy_fungi.csv
richness_T1T2T3_ggplotfigures_bacteria_zotuvotu.R		richness_T1T2T3_ggplotfigures_bacteria_zotuvotu.R
richness_T1T2T3_ggplotfigures_fungi_zotuvotu.R		richness_T1T2T3_ggplotfigures_fungi_zotuvotu.R
zotutab_inoculum_tax_filtered_bacteria.csv		zotutab_inoculum_tax_filtered_bacteria.csv
zotutab_inoculum_taxonomy_fungi.csv		zotutab_inoculum_taxonomy_fungi.csv

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OTUvESV

This is to test the effects of using OTUs vs ESVs on microbial community analyses

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