Single-Cell Analysis of Host-Microbiome Interactions

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Documentation for package ‘rsahmi’ version 0.0.2

• DESCRIPTION file.
• Package NEWS.

Help Pages

blsd	Barcode level signal denoising
extractor	Extract reads and output from Kraken
extract_kraken_output	Extract reads and output from Kraken
extract_kraken_reads	Extract reads and output from Kraken
extract_taxids	Extract reads and output from Kraken
parse_kraken_report	Parse kraken report file
prep_dataset	Prepare kraken report, k-mer statistics, UMI data
read_dataset	Prepare kraken report, k-mer statistics, UMI data
remove_contaminants	Identifying contaminants and false positives taxa (cell line quantile test)
slsd	Sample level signal denoising
taxa_counts	Quantitation of microbes