Challenger-Deep-Microbes

This repository is associated with the paper Microbiomes in the Challenger Deep slope and bottom-axis sediments

Data

Raw data can be found at NCBI under BioProject number PRJNA635214 or https://doi.org/10.6084/m9.figshare.12979709

Name		Name	Last commit message	Last commit date
Latest commit History 21 Commits
Py		Py
Fig.1bcde.R		Fig.1bcde.R
Fig.2b-pcoa.R		Fig.2b-pcoa.R
Fig.3a-coregene_heatmap.R		Fig.3a-coregene_heatmap.R
Fig.3b-coregene-tpm.R		Fig.3b-coregene-tpm.R
Fig.3c-coregene-expression-tpm.R		Fig.3c-coregene-expression-tpm.R
Fig.4a-MAG_abundance_heatmap.R		Fig.4a-MAG_abundance_heatmap.R
Fig1a_Challenger_Deep_map_GMT.sh		Fig1a_Challenger_Deep_map_GMT.sh
Figs14_corekegg_barchart.R		Figs14_corekegg_barchart.R
README.md		README.md
SFig.10a-cazyme_count.R		SFig.10a-cazyme_count.R
SFig.10bcd_cazyme.R		SFig.10bcd_cazyme.R
SFig.11-cazyme_percentage_bubble.R		SFig.11-cazyme_percentage_bubble.R
SFig.12-boxplot_Seed_function.R		SFig.12-boxplot_Seed_function.R
SFig.14-coregene_barchart.R		SFig.14-coregene_barchart.R
SFig.1b-porewater.R		SFig.1b-porewater.R
SFig.1cde-barchart.R		SFig.1cde-barchart.R
SFig.3-mitag_phylum_abundance.R		SFig.3-mitag_phylum_abundance.R
SFig.4ab-mitag_novelty_bottom-axis.R		SFig.4ab-mitag_novelty_bottom-axis.R
SFig.5-18S_percentage.R		SFig.5-18S_percentage.R
SFig.6-MAG_abundance.R		SFig.6-MAG_abundance.R
SFig.7ab-mitag-pcoa.R		SFig.7ab-mitag-pcoa.R
SFig.8-Top80_compare_gene.R		SFig.8-Top80_compare_gene.R
SFig.9-cluster_abundance.R		SFig.9-cluster_abundance.R
koAnnotation20191008.txt		koAnnotation20191008.txt
kosum20191008.txt		kosum20191008.txt