tina,matrix-method {mina} | R Documentation |
Function for 'tina' dissimilarity calculation. Modified from Schmidt et al., 2016. Person and Spearman could be used for correlation and weighted and unweighted Jaccard could be used for similarity calculation.
## S4 method for signature 'matrix' tina( x, cor_method = "spearman", sim_method = "w_ja", threads = 80, nblocks = 400, ... )
x |
A matrix for dissimilarity calculation. |
cor_method |
The method for correlation, "pearson" and "spearman" are available. |
sim_method |
The method for similarity, "w_ja" and "uw_ja" are available for weighted and unweighted Jaccard similarity respectively. |
threads |
The number of threads used for parallel running, 80 by default. |
nblocks |
The number of row and column for splitted sub-matrix, 400 by default. |
... |
Additional parameters. |
t The output 'tina' dissimilarity matrix.
## Not run: asv_norm <- norm_tab(maize_asv2, method = "raref", depth = 1000) asv_dis <- com_dis(asv_norm, method = "bray") asv_dis <- com_dis(asv_norm, method = "tina", threads = 8, nblocks = 40) asv_tina <- tina(asv_norm, cor_method = "spearman", sim_method = "w_ja", threads = 8, nblocks = 40) ## End(Not run)