df_glom: Like tax_glom, but for data frames

In JCSzamosi/aftersl1p: Generate Summary Graphics and Basic Analysis of 16s Data

Like tax_glom, but for data frames

Description

df_glom() take totals within sample at a given taxonomic rank.

Usage

df_glom(
  phy_df,
  ranks,
  IDcol = "X.SampleID",
  rank = "Phylum",
  abunds = "Abundance"
)

Arguments

phy_df	A phyloseq data frame, as generated by phyloseq::psmelt() or make_phy_df()
ranks	A character vector with the taxon rank names
IDcol	The column name of the sample IDs
rank	The taxonomic rank to glom at
abunds	The column name of the abundances to sum
tots	The desired column name of the summed (glommed) abundances

JCSzamosi/aftersl1p documentation built on July 3, 2025, 8:37 p.m.