All data and accompanying files for "Human oral mucosa and oral microbiome interactions following supragingival plaque reconstitution: a diet-controlled balanced design proof-of-concept model for oral toxicities"
slurm script to align kneaddata output (bacterial RNA) to large ncbi index, convert sam to bam and then sort bam files
slurm script to convert sam to bam files and sort the bam files for human plaque samples
slurm script to convert brush biopsies from sam to bam and sort
command used to run featurecounts on RNASeq data
R script used to run DESeq2 on human brush/plaque samples, annotate dataset, and return differentially expressed genes, go ters, and kegg pathways
slurm script used to run HumanN2 on bacterial plaque samples
slurm script used to remove bacterial RNA data from human plaque samples
slurm script to align brush and human plaque samples