Element clustering that best accounts for an assembly property or function

add_ass_names | Add the names of assemblies |

affect_motifs | Cluster the assemblages by assembly motifs |

AIC | AIC of two numeric vectors |

AICc | AICc of two numeric vectors |

amean | Arithmetic mean |

amean_byelt | Arithmetic mean (amean) by elements occurring within the... |

amean_byelt_jack | Arithmetic mean (amean) by motif (bymot) by jackknife (jack)... |

amean_byelt_LOO | Arithmetic mean (amean) by elements occurring within the... |

amean_bymot_jack | Arithmetic mean (amean) by motif (bymot) by jackknife (jack)... |

amean_bymot_LOO | Arithmetic mean (amean) by motif (bymot) by leave-one-out... |

argmax | Index of the maximum values of a vector |

argmin | Index of the minimum values of a vector |

asd | Arithmetical standard deviation |

cluster_elements | fffff |

cluster_elements_LOO | rrr |

cluster_motifs | kkk |

compact_index | Return a vector continuously indexed from 1 to max(index) |

compute_fit_stats | Compute the matrix 3 x nbclusters of R2cal, R2prd, and... |

compute_motif_stats | Compute the statistiques of each motifs |

compute_tree_stats | Compute and plot the best Prediction as a concatenation of... |

confidence_intervals | Confidence and prediction intervals for a linear model |

cor2 | Return the Pearson' R2 of a linear regression |

cut_tree | kkk |

first_argmax | Index of the first maximum value of a vector |

first_argmin | Index of the first minimum value of a vector |

gmean | Geometric mean |

gmean_byelt | Geometric mean (gmean) by elements occurring within the... |

gmean_byelt_jack | Geometric mean (amean) by motif (bymot) by jackknife (jack)... |

gmean_byelt_LOO | Geometric mean (amean) by elements occurring within the... |

gmean_bymot_jack | Geometric mean (gmean) by motif (bymot) by jackknife (jack)... |

gmean_bymot_LOO | Geometric mean (gmean) by motif (bymot) by leave-one-out... |

gsd | Geometric standard deviation |

maffect_motifs | Cluster the assemblages by assembly motifs |

mean_fct | Switch for arithmetic or geometric mean according to option... |

mse | Mean Square Error (MSE) of two numeric vectors |

multiplicative_decomposition | Decompose the observed performance into a.inter and a.comp... |

names_assembly | names (in minus letters) of elements, |

nbMax_tests | mmm |

plot_prediction | Plot all the necessary predicting figures |

plot_prediction_LOO | mmm |

plot_prediction_simple | Plot Predictions vs Observations |

plot_prediction_supp | Plot all the necessary predicting figures |

plot_stats | Plot the matrix 3 x nbclusters of R2cal, R2prd, and missing... |

plot_tree | Plot a Divisive or Agglomerative Hierarchical Clustering |

pmse | Probability associated with the Coefficient of Determination... |

predict_amean_byelt | Arithmetic mean (amean) by elements occurring within the... |

predict_amean_byelt_jack | Arithmetic mean (amean) by motif (bymot) by jackknife (jack) |

predict_amean_byelt_jack_xpr | Arithmetic mean (amean) by motif (bymot) by jackknife (jack)... |

predict_amean_byelt_LOO | Arithmetic mean (amean) by elements occurring within the... |

predict_amean_byelt_LOO_xpr | Arithmetic mean (amean) by elements occurring within the... |

predict_amean_byelt_supp | Prediction of supplementary assemblages computed |

predict_amean_byelt_xpr | Arithmetic mean (amean) by elements occurring within the... |

predict_amean_bymot | Arithmetic mean (amean) by assembly motif (bymot) |

predict_amean_bymot_jack | Arithmetic mean (amean) by motif (bymot) by jackknife (jack) |

predict_amean_bymot_jack_xpr | Arithmetic mean (amean) by motif (bymot) by jackknife (jack)... |

predict_amean_bymot_LOO | Arithmetic mean (amean) by motif (bymot) by leave-one-out... |

predict_amean_bymot_LOO_xpr | Arithmetic mean (amean) by motif (bymot) by leave-one-out... |

predict_amean_bymot_supp | Prediction of supplementary assemblages |

predict_amean_bymot_xpr | Arithmetic mean (amean) by motif (bymot) over several... |

predict_cal | Arithmetic mean (amean) by motif (bymot) by jackknife (jack)... |

predict_function | Compute assembly functioning and associated statistiques... |

predict_function_supp | # Compute assembly functioning and associated statistiques... |

predict_gmean_byelt | Geometric mean (gmean) by elements occurring within the... |

predict_gmean_byelt_jack | Geometric mean (amean) by motif (bymot) by jackknife (jack) |

predict_gmean_byelt_jack_xpr | Geometric mean (amean) by motif (bymot) by jackknife (jack)... |

predict_gmean_byelt_LOO | Geometric mean (amean) by elements occurring within the... |

predict_gmean_byelt_LOO_xpr | Geometric mean (amean) by elements occurring within the... |

predict_gmean_byelt_supp | Prediction of supplementary assemblages computed |

predict_gmean_byelt_xpr | Geometric mean (gmean) by elements occurring within the... |

predict_gmean_bymot | Geometric mean (gmean) by motif (bymot) |

predict_gmean_bymot_jack | Geometric mean (gmean) by motif (bymot) by jackknife (jack) |

predict_gmean_bymot_jack_xpr | Geometric mean (gmean) by motif (bymot) by jackknife (jack)... |

predict_gmean_bymot_LOO | Geometric mean (gmean) by motif (bymot) by leave-one-out... |

predict_gmean_bymot_LOO_xpr | Geometric mean (gmean) by motif (bymot) by leave-one-out... |

predict_gmean_bymot_supp | Prediction of supplementary assemblages |

predict_gmean_bymot_xpr | Geometric mean (gmean) by motif (bymot) over several... |

predict_prd | Predition of assembly property by cross-validation |

predict_supp | Arithmetic mean (amean) by motif (bymot) by jackknife (jack)... |

predict_twin_fct | Compute assembly functioning and associated statistiques... |

pvalue_dependent_R2mse | Test for the dependence of two R2 |

R2mse | Coefficient of Determination (R2) of two numeric vectors |

rm_dual_assemblies | Remove species assemblies that were in several exemplar |

rm_elements | Remove one or more species from data |

rmse | Root Mean Square Error RMSE) of two numeric vectors |

rss | Residual Sum of Square (RSS) of two numeric vectors |

rss_cluster_elt | ddd |

shift_affectElt | Indexes the species clusters by decreasing structuring effect |

significant_assemblies | dd |

significant_elements | mmm |

sort_tree | Sort the resulting file of tree |

stirling | Number of Stirling of second kind |

test_dependent_R2 | Test for the dependence of two R2 |

test_dependent_R2mse | Test for the dependence of two R2 |

test_posthoc | Test posthoc of variance analysis |

wamean | Weighted arithmetical mean |

wasd | Weighted arithmetic standard deviation |

wgmean | Weighted geometric mean |

wgsd | Weighted geometric standard deviation |

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