Man pages for BenitoJaillard/combinAna
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 |
