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functClust  

Functional Clustering of Redundant Components of a System
View on CRAN: Click here


Download and install functClust package within the R console
Install from CRAN:
install.packages("functClust")

Install from Github:
library("remotes")
install_github("cran/functClust")

Install by package version:
library("remotes")
install_version("functClust", "0.1.6")



Attach the package and use:
library("functClust")
Maintained by
Benot Jaillard
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2020-12-02
Latest Update: 2023-03-11
Description:
Cluster together the components that make up an interactivesystem on the basis of their functional redundancyfor one or more collective systemic performances.Plot the hierarchical tree of component clustersthe modelled and predicted performances of component assemblagesand other results associated with a functional clustering.Test and prioritize the significance of the different componentsthat make up the interactive systemof the different assemblages of components that make up the datasetand of the different performances observed on the component assemblages.The method finds application in ecology for instancewhere the system is an ecosystem the components are organisms or speciesand the systemic performance is the production of biomassor the respiration of the ecosystem.The method is extensively described inJaillard B Deleporte P Loreau M Violle C 2018A combinatorial analysis using observational data identifies speciesthat govern ecosystem functioningdoi10.1371journal.pone.0201135.
How to cite:
Benot Jaillard (2020). functClust: Functional Clustering of Redundant Components of a System. R package version 0.1.6, https://cran.r-project.org/web/packages/functClust
Previous versions and publish date:
0.1.6 (2020-12-02 11:30)
Other packages that cited functClust R package
View functClust citation profile
Other R packages that functClust depends, imports, suggests or enhances
Functions, R codes and Examples using the functClust R package
Some associated functions: AIC_ . AICc . CedarCreek.2004.2006.boot.assemblages . CedarCreek.2004.2006.boot.performances . CedarCreek.2004.2006.dat . CedarCreek.2004.2006.res . CedarCreek.2004.2006.test.assemblages . CedarCreek.2004.2006.test.components . CedarCreek.2004.2006.test.performances . CedarCreek.2004.res . R2 . R2mse . add_ass_names . affect_motifs . agglomerative_ftree . amean . amean_byelt . amean_byelt_LOO . amean_byelt_jack . amean_bymot_LOO . amean_bymot_jack . argchr . argmax . argmin . asd . binary_to_logical . build_random_matrix . calibrate_amean_byelt . calibrate_amean_byelt_xpr . calibrate_amean_bymot . calibrate_amean_bymot_xpr . calibrate_byminrss . calibrate_gmean_byelt . calibrate_gmean_byelt_xpr . calibrate_gmean_bymot . calibrate_gmean_bymot_xpr . char_to_int . check_foption . check_ftree . check_plot_options . check_repeat . compact_index . complete_ftree . compute_fit_stats . compute_ftree_stats . compute_motif_stats . concat_by_line . cut_ftree . delstr_begin . delstr_end . divisive_ftree . extend_letters . extend_vector . fboot . fboot_assemblages . fboot_one_point . fboot_performances . fboot_plot . fboot_read . fboot_read_one_point . fboot_write . fboot_write_one_point . fclust . fclust_plot . fclust_predict . fclust_read . fclust_write . fcolours . fepsilon . first_argchr . first_argmax . first_argmin . fit_ftree . fletters . fnbdigits . format_fclust . fpvalue . fstd_colour . fsymbols . ftest . ftest_assemblages . ftest_components . ftest_performances . ftest_plot . ftest_plot_assemblages . ftest_plot_components . ftest_plot_performances . ftest_read . ftest_write . functClust-package . fwindow . gmean . gmean_byelt . gmean_byelt_LOO . gmean_byelt_jack . gmean_bymot_LOO . gmean_bymot_jack . gsd . index_inturn . is_binary . list_in_quote . logical_to_binary . maffect_motifs . make_fclust . mark_string . mean_fct . mse . name_clusters . name_motifs . nb_tests . notify_fclust . plot_by_page . plot_clusters_content . plot_components_box . plot_components_content . plot_fass . plot_fcomp . plot_fmotif . plot_fperf . plot_ftree . plot_ftrees . plot_motifs_box . plot_motifs_content . plot_motifs_histo . plot_motifs_infos . plot_prediction_LOO . plot_prediction_simple . plot_stats . pmse . points_sd . predict_amean_byelt . predict_amean_bymot . predict_gmean_byelt . predict_gmean_bymot . predict_performance . pvalue_dependent_R2mse . read_finputs . read_fmatrices . read_foptions . read_fstats . read_ftrees . remove_components . reverse_table . rmse . rss . rss_clustering . rss_total . shift_affectElt . simplify_ftree . sort_components . sort_ftree . sort_matrix . sort_motifs . stirling . test_dependent_R2 . test_dependent_R2mse . test_posthoc . validate_amean_byelt_LOO . validate_amean_byelt_LOO_xpr . validate_amean_byelt_jack . validate_amean_byelt_jack_xpr . validate_amean_bymot_LOO . validate_amean_bymot_LOO_xpr . validate_amean_bymot_jack . validate_amean_bymot_jack_xpr . validate_ftree . validate_gmean_byelt_LOO . validate_gmean_byelt_LOO_xpr . validate_gmean_byelt_jack . validate_gmean_byelt_jack_xpr . validate_gmean_bymot_LOO . validate_gmean_bymot_LOO_xpr . validate_gmean_bymot_jack . validate_gmean_bymot_jack_xpr . validate_using_cross_validation . wamean . wasd . wgmean . wgsd . 
Some associated R codes: boot_fclust.R . calibrating.R . clustering.R . constants.R . data.R . fclust.R . fexport.R . functClust-package.R . labelling.R . plot_fclust.R . predicting.R . stats.R . test_fclust.R . tools.R . validating.R . validating_jack.R . validating_loo.R .  Full functClust package functions and examples
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