summarize_total_reads: Counts all HMM hits for the gene of interest

In MetAnnotate/metannoviz: Process and visualize output from the MetAnnotate pipeline

Description

Counts all HMM hits for the gene of interest

Usage

summarize_total_reads(
  metannotate_data,
  gene = "rpoB",
  collapsed = FALSE,
  replicates = TRUE
)

Arguments

metannotate_data	Tibble of metannotate data
gene	Character vector (length 1) of a gene to summarize
collapsed	Logical (length 1) - has the table already been collapsed to a taxonomy rank?
replicates	Logical (length 1) - does the table include a 'replicates' column? If TRUE, then the function will sum the "hits" column instead of a simple count.

Value

Tibble of summarized hit counts

MetAnnotate/metannoviz documentation built on Aug. 2, 2020, 3:12 p.m.