Raw WIMP files plus metadata to phyloseq objectSource:
Given wimp directory and metadata, make phyloseq object. phyloseq package required.
wimp_raw_to_phyloseq( path.to.wimp.files, metadata, keep.unclassified = FALSE, keep.human = FALSE )
path to data of raw csv files from WIMP analysis
dataframe of metadata with "filename" and "barcode" columns required
TRUE or FALSE: whether to keep reads that do not classify below phylum, default = FALSE
TRUE or FALSE: whether to keep reads that are classified as human, default = FALSE