sample.table: phyloseq-styled sample table

In SIPmg: Statistical Analysis to Identify Isotope Incorporating MAGs

phyloseq-styled sample table

Description

Creates a phyloseq-styled sample table from fractions metadata containing data on fraction number, number of replicates, buoyant density calculated from a refractometer, type of isotope, and DNA concentration of each fraction, and isotope type. See below for information on "fractions" file.

Usage

sample.table(fractions_df)

Arguments

fractions_df

fractions data frame A fractions file with the following columns Replicate: Depends on how many replicates the study has Fractions: Typically in the range of 2-24 Buoyant_density: As calculated from the refractometer for each fraction and replicate Isotope: "12C", "13C", "14N", "15N" etc. DNA_concentration Sample: In the format "'isotope'rep#fraction#". For instance, "12C_rep_1_fraction_1"

Value

data frame: phyloseq-style sample table

Examples

data(fractions)



### Making phyloseq table from fractions metadata
samples.object = sample.table(fractions)

SIPmg documentation built on March 7, 2023, 6:47 p.m.