Szitenberg et al. 2021

Small scale geodiversity structures ammonia-oxidizing communities and other microbial provisioning in a semi-arid shrubland

Raw data: NCBI BioProject PRJNA697940
Local

16S rRNA data pre-processing: nbviewer
ITS1 data pre-processing: nbviewer
Diversity analyses: nbviewer
NCBI metadata: nbviewer

Name		Name	Last commit message	Last commit date
Latest commit History 46 Commits
.ipynb_checkpoints		.ipynb_checkpoints
ancom		ancom
ancom_asvs		ancom_asvs
ancom_l4		ancom_l4
anova		anova
bars_and_alpha_rarefaction		bars_and_alpha_rarefaction
biosample_sra		biosample_sra
cut_reads/16SrRNA		cut_reads/16SrRNA
dada		dada
diversity		diversity
diversity_hetero		diversity_hetero
diversity_homo		diversity_homo
diversity_intershrub		diversity_intershrub
diversity_shrub		diversity_shrub
filtered_tables		filtered_tables
logistic_regression		logistic_regression
merged/16SrRNA		merged/16SrRNA
phylogenies		phylogenies
picrust		picrust
raw_data		raw_data
.gitignore		.gitignore
16SrRNA_metadata.tsv		16SrRNA_metadata.tsv
16SrRNA_top_orders.tsv		16SrRNA_top_orders.tsv
BioSample_and_SRA.ipynb		BioSample_and_SRA.ipynb
Diversity.ipynb		Diversity.ipynb
Fig1.odp		Fig1.odp
Fig1.pdf		Fig1.pdf
Fig1.png		Fig1.png
FigS1.odp		FigS1.odp
FigS1.pdf		FigS1.pdf
ITS1_metadata.tsv		ITS1_metadata.tsv
ITS1_top_orders.tsv		ITS1_top_orders.tsv
LICENSE		LICENSE
PCoA.png		PCoA.png
PreProcess16sData.ipynb		PreProcess16sData.ipynb
PreProcessITS1Data.ipynb		PreProcessITS1Data.ipynb
README.md		README.md
geo_abstract.png		geo_abstract.png
geo_abstract1.png		geo_abstract1.png
logistic_regression.png		logistic_regression.png
merged_16SrRNA_read_stas.tsv		merged_16SrRNA_read_stas.tsv
rel_abund.png		rel_abund.png
unifrac_boxplots_subset.png		unifrac_boxplots_subset.png