GitHub - Mia-FGB/Sampler_Comparison_Scripts: R scripts that utilise phyloseq to analyse MARTi alignment data. Specifically written to look at data collected in 2022

Mia-FGB / Sampler_Comparison_Scripts Public

R scripts that utilise phyloseq to analyse MARTi alignment data. Specifically written to look at data collected in 2022

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Name		Name	Last commit message	Last commit date
Latest commit History 13 Commits
.DS_Store		.DS_Store
.RData		.RData
.Rhistory		.Rhistory
.gitattributes		.gitattributes
Compare_MARTi_glom_2908.R		Compare_MARTi_glom_2908.R
DNA_yield_graph.R		DNA_yield_graph.R
Marti_MEGAN_comparison_visualisation.R		Marti_MEGAN_comparison_visualisation.R
PCoA_phyloseq_updated.R		PCoA_phyloseq_updated.R
PHIbase_sampler_comparison_heatmap.R		PHIbase_sampler_comparison_heatmap.R
PHIbase_taxonomic_rank.R		PHIbase_taxonomic_rank.R
Phyloseq_analysis.R		Phyloseq_analysis.R
Stacked_Phylum_Bars_Phyloseq.R		Stacked_Phylum_Bars_Phyloseq.R
kingdom_proportion_stacked_bar.R		kingdom_proportion_stacked_bar.R
metadata_exploration.R		metadata_exploration.R
orchestrating_microbiome_analysis_3.4.R		orchestrating_microbiome_analysis_3.4.R
pathogen_of_interest_samp_comp_1024.ipynb		pathogen_of_interest_samp_comp_1024.ipynb
phyloseq_tree.R		phyloseq_tree.R
random_forest_samp_comp.py		random_forest_samp_comp.py
random_forest_sampcomp_v2_0724.ipynb		random_forest_sampcomp_v2_0724.ipynb
req.txt		req.txt
req_2.txt		req_2.txt
sampler_comparison_PHIbase_stacked_bar.R		sampler_comparison_PHIbase_stacked_bar.R
t-sne_PCoA_samp_comp_v2.ipynb		t-sne_PCoA_samp_comp_v2.ipynb
t-sne_samp_comp.py		t-sne_samp_comp.py
taxa_proportion_uniq.R		taxa_proportion_uniq.R
top_taxa_graphs.R		top_taxa_graphs.R
updated_mia_analysis.R		updated_mia_analysis.R