Man pages for microeco
Microbial Community Ecology Data Analysis

cloneCopy an R6 class object completely
datasetThe dataset in the microeco package
dropallfactorsRemove all factors in a data frame
env_data_16SThe environmental factors for the 16S dataset in the microeco...
fungi_func_FungalTraitsThe FungalTraits database for fungi trait identification in...
fungi_func_FUNGuildThe FUNGuild database for fungi trait identification in the...
ko_mapThe KEGG pathway annotation database in the microeco package
microtableCreate microtable object to store and manage all the basic...
otu_table_16SThe OTU table of the 16S dataset in the microeco package
otu_table_ITSThe OTU table of the ITS dataset in the microeco package
phylo_tree_16SThe phylogenetic tree of 16S dataset in the microeco package
prok_func_FAPROTAXThe modified FAPROTAX trait database in the microeco package
prok_func_NJC19_listThe modified NJC19 database in the microeco package
rep_fasta_16SThe fasta file of 16S dataset used in tax4fun2 method.
sample_info_16SThe sample information of 16S dataset in the microeco package
sample_info_ITSThe sample information of ITS dataset in the microeco package
Tax4Fun2_KEGGThe KEGG data files used in the cal_tax4fun2 function of...
taxonomy_table_16SThe taxonomic information of 16S dataset in the microeco...
taxonomy_table_ITSThe taxonomic information of ITS dataset in the microeco...
tidy_taxonomyClear up the taxonomic table to make taxonomic assignments...
trans_abundCreate trans_abund object to transform taxonomic abundance...
trans_alphaCreate trans_alpha object for alpha diveristy statistics and...
trans_betaCreate trans_beta object for the analysis of distance matrix...
trans_diffCreate trans_diff object for the differential analysis on the...
trans_envCreate trans_env object for the analysis of the effects of...
trans_funcCreate trans_func object for functional analysis.
trans_networkCreate trans_network object for co-occurrence network...
trans_nullmodelCreate trans_nullmodel object.
trans_vennCreate trans_venn object.
microeco documentation built on Sept. 5, 2021, 5:44 p.m.