incorporators_taxonomy: Isotope incorporator list with GTDB taxonomy

In SIPmg: Statistical Analysis to Identify Isotope Incorporating MAGs

Isotope incorporator list with GTDB taxonomy

Description

This function provides a table with MAGs and their corresponding GTDB taxonomy as an output. This would be useful in identifying the taxa that have incorporation

Usage

incorporators_taxonomy(taxonomy, bootstrapped_AFE_table)

Arguments

taxonomy	A taxonomy tibble obtained in the markdown. This taxonomy tibble is typically a concatenated list of archaeal and bacterial taxonomy from GTDB-Tk Please check GTDB-Tk documentation for running the tool
bootstrapped_AFE_table	A data frame indicating bootstrapped atom fraction excess values

Value

A tibble with two columns, OTU and Taxonomy, with taxonomy of the incorporator MAGs

Examples

data(taxonomy_tibble,df_atomX_boot)



### Making incorporator taxonomy list
incorporator_list = incorporators_taxonomy(taxonomy = taxonomy_tibble,
         bootstrapped_AFE_table = df_atomX_boot)

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