Tax4Fun2_KEGG           The KEGG data files used in the trans_func
                        class
clone                   Copy an R6 class object
dataset                 The dataset structured with microtable class
                        for the demonstration of examples
dropallfactors          Remove all factors in a data frame
env_data_16S            The environmental factors for the 16S example
                        data
fungi_func_FUNGuild     The FUNGuild database for fungi trait
                        prediction
fungi_func_FungalTraits
                        The FungalTraits database for fungi trait
                        prediction
microeco                Introduction to microeco package
                        (https://github.com/ChiLiubio/microeco)
microtable              Create 'microtable' object to store and manage
                        all the basic data.
otu_table_16S           The OTU table of the 16S example data
otu_table_ITS           The OTU table of the ITS example data
phylo_tree_16S          The phylogenetic tree of 16S example data
prok_func_FAPROTAX      Customized FAPROTAX trait database
prok_func_NJC19_list    The NJC19 database
sample_info_16S         The sample information of 16S example data
sample_info_ITS         The sample information of ITS example data
soil_metab              Microtable object of non-targeted metabolome
                        data from bulk soil and maize rhizosphere soil
                        in an agricultural field experiment with crop
                        rotation and fertilization treatments (DOI:
                        10.1007/s11104-024-06847-9).
soil_microb             Microtable object of prokaryotic sequencing
                        data from soil and maize in an agricultural
                        field experiment with crop rotation and
                        fertilization treatments (DOI:
                        10.1007/s11104-024-06847-9).
taxonomy_table_16S      The taxonomic information of 16S example data
taxonomy_table_ITS      The taxonomic information of ITS example data
tidy_taxonomy           Clean up the taxonomic table to make taxonomic
                        assignments consistent.
trans_abund             Create 'trans_abund' object for taxonomic
                        abundance visualization.
trans_alpha             Create 'trans_alpha' object for alpha diversity
                        statistics and visualization.
trans_beta              Create 'trans_beta' object for beta-diversity
                        analysis
trans_classifier        Create 'trans_classifier' object for
                        machine-learning-based model prediction.
trans_diff              Create 'trans_diff' object for the differential
                        analysis on the taxonomic abundance
trans_env               Create 'trans_env' object to analyze the
                        association between environmental factor and
                        microbial community.
trans_func              Create 'trans_func' object for functional
                        prediction.
trans_metab             Create 'trans_metab' object for metabolite
                        analysis.
trans_network           Create 'trans_network' object for network
                        analysis.
trans_niche             Create 'trans_niche' object for niche breadth
                        and niche overlap analysis.
trans_norm              Feature abundance normalization/transformation.
trans_nullmodel         Create 'trans_nullmodel' object for null model
                        related analysis.
trans_phylo             trans_phylo class
trans_venn              Create 'trans_venn' object for the Venn
                        diagram, petal plot and UpSet plot.
