Various Rscripts to deal with data-wrangling during metagenomic analysis.
- parsePileup.R : parse coverage depth files generated with BBMAP pileup.sh, after mapping individual read sets onto a combined contig set with minimap2 for usage with Metabat2
- jgidepthToAbundance.R : create abundance files and lists from Metabat-like coverage files
- assign_taxonomy_16S.R : assign taxonomy using DADA2 functions and silvadb to a set of (full) 16S rRNA sequences