Description Usage Arguments Value Examples
Implementation of 10-fold cross-validataion. It takes in an entire dataset, with first column the sample IDs, second column the group variable (classificatoin variable/disease type), using "Type" as its colum names, and third column the beginning of count table.
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data |
A data frame validation set with first column the sample IDs, second column the group variable (classificatoin variable/disease type), and third column the beginning of count table. |
type_col |
An index indicating at which column is group/type variable. The default is the 3rd column. |
col_start |
An index indicating at which column is the beginning of bacteria (features) data. Default is the 2nd column. |
Cutoff_mean |
The minimum average relative abundance allowed in filtering step. Default is 0.0005. |
Cutoff_ratio |
The non-zero ratio cutoff in filtering features.Default value is 0.1. |
totalReadsCutoff |
The minimum allowed total reads per sample. Any sample has less than this number of total reads will be removed. Default is 500. |
Cutoff_pvalue |
The maximal P value allowed for a given feature to be remained in the list of selected features. |
A list of CalPrb() results. This output will be further used for Cal_AUC() in order to estimate the final model.
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