mina-class {mina}

R Documentation

Class "mina" includes the quantitative table and descriptive table.

Description

Class "mina" includes the quantitative table and descriptive table.

Slots

tab

The quantitative table of the dataset.

des

The descriptive table of the samples listed in @tab.

norm

The normalized quantitative table of @tab.

dis

The distance / dissimilarity matrix between samples in @tab.

dmr

The list of dimensionality reduction result, includes points and variance.

adj

The adjacency matrix between pairwise compositions (e.g. OTUs/ASVs)

adj_sig

The P-value matrix of adjacency matrix, only applicable for Pearson and Spearman correlation adjacency matrices.

cls

The cluster information for each composition.

cls_tab

The cluster quantitative table.

multi

The list of subsampled adjacency matrices for each environment.

perm

The list of permutated adjacency matrices for each pairwise environmental comparison.

dis_bs

The distance between networks of different environmental communities.

dis_pm

The distance between networks of permutated groups.

dis_stat

The average distance between subsampled environmental community networks, permutated networks and corresponding significance.

Author(s)

Rui Guan https://github.com/Guan06

Examples

maize <- new("mina", tab = maize_asv, des = maize_des)

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