Ajout des programmes python (apprentissage NS)

2020-11-10 21:38:27 +01:00 · 2020-11-10 21:38:27 +01:00 · 215d9cb2ac
commit 215d9cb2ac
parent 198fcedd98
383 changed files with 654279 additions and 2 deletions
--- a/AgglClustOutput/interests/clusters_curves1_n_clust_automatique_DB.png
+++ b/AgglClustOutput/interests/clusters_curves1_n_clust_automatique_DB.png
--- a/AgglClustOutput/interests/clusters_curves1_n_clust_automatique_S.png
+++ b/AgglClustOutput/interests/clusters_curves1_n_clust_automatique_S.png
--- a/AgglClustOutput/interests/clusters_curves1_n_clust_connu_linkage_average.png
+++ b/AgglClustOutput/interests/clusters_curves1_n_clust_connu_linkage_average.png
--- a/AgglClustOutput/interests/clusters_curves1_n_clust_connu_linkage_complete.png
+++ b/AgglClustOutput/interests/clusters_curves1_n_clust_connu_linkage_complete.png
--- a/AgglClustOutput/interests/clusters_curves1_n_clust_connu_linkage_single.png
+++ b/AgglClustOutput/interests/clusters_curves1_n_clust_connu_linkage_single.png
--- a/AgglClustOutput/interests/clusters_curves1_n_clust_connu_linkage_ward.png
+++ b/AgglClustOutput/interests/clusters_curves1_n_clust_connu_linkage_ward.png
--- a/AgglClustOutput/interests/clusters_twenty_n_clust_automatique_DB.png
+++ b/AgglClustOutput/interests/clusters_twenty_n_clust_automatique_DB.png
--- a/AgglClustOutput/interests/clusters_twenty_n_clust_automatique_S.png
+++ b/AgglClustOutput/interests/clusters_twenty_n_clust_automatique_S.png
--- a/AgglClustOutput/interests/clusters_twenty_n_clust_connu_linkage_average.png
+++ b/AgglClustOutput/interests/clusters_twenty_n_clust_connu_linkage_average.png
--- a/AgglClustOutput/interests/clusters_twenty_n_clust_connu_linkage_complete.png
+++ b/AgglClustOutput/interests/clusters_twenty_n_clust_connu_linkage_complete.png
--- a/AgglClustOutput/interests/clusters_twenty_n_clust_connu_linkage_single.png
+++ b/AgglClustOutput/interests/clusters_twenty_n_clust_connu_linkage_single.png
--- a/AgglClustOutput/interests/clusters_twenty_n_clust_connu_linkage_ward.png
+++ b/AgglClustOutput/interests/clusters_twenty_n_clust_connu_linkage_ward.png
--- a/AgglClustOutput/interests/clusters_xclara_n_clust_automatique_DB.png
+++ b/AgglClustOutput/interests/clusters_xclara_n_clust_automatique_DB.png
--- a/AgglClustOutput/interests/clusters_xclara_n_clust_automatique_S.png
+++ b/AgglClustOutput/interests/clusters_xclara_n_clust_automatique_S.png
--- a/AgglClustOutput/interests/clusters_xclara_n_clust_connu_linkage_average.png
+++ b/AgglClustOutput/interests/clusters_xclara_n_clust_connu_linkage_average.png
--- a/AgglClustOutput/interests/clusters_xclara_n_clust_connu_linkage_complete.png
+++ b/AgglClustOutput/interests/clusters_xclara_n_clust_connu_linkage_complete.png
--- a/AgglClustOutput/interests/clusters_xclara_n_clust_connu_linkage_single.png
+++ b/AgglClustOutput/interests/clusters_xclara_n_clust_connu_linkage_single.png
--- a/AgglClustOutput/interests/clusters_xclara_n_clust_connu_linkage_ward.png
+++ b/AgglClustOutput/interests/clusters_xclara_n_clust_connu_linkage_ward.png
--- a/AgglClustOutput/interests/coefficients_S_curves1_K_2_20.png
+++ b/AgglClustOutput/interests/coefficients_S_curves1_K_2_20.png
--- a/AgglClustOutput/interests/coefficients_S_twenty_K_2_20.png
+++ b/AgglClustOutput/interests/coefficients_S_twenty_K_2_20.png
--- a/AgglClustOutput/interests/coefficients_S_xclara_K_2_20.png
+++ b/AgglClustOutput/interests/coefficients_S_xclara_K_2_20.png
--- a/AgglClustOutput/interests/indices_DB_curves1_K_2_20.png
+++ b/AgglClustOutput/interests/indices_DB_curves1_K_2_20.png
--- a/AgglClustOutput/interests/indices_DB_twenty_K_2_20.png
+++ b/AgglClustOutput/interests/indices_DB_twenty_K_2_20.png
--- a/AgglClustOutput/interests/indices_DB_xclara_K_2_20.png
+++ b/AgglClustOutput/interests/indices_DB_xclara_K_2_20.png
--- a/AgglClustOutput/limits/bad_clusters_cure-t1-2000n-2D_n_clust_connu.png
+++ b/AgglClustOutput/limits/bad_clusters_cure-t1-2000n-2D_n_clust_connu.png
--- a/AgglClustOutput/limits/bad_clusters_wingnut_n_clust_connu.png
+++ b/AgglClustOutput/limits/bad_clusters_wingnut_n_clust_connu.png
--- a/AgglClustOutput/limits/bad_clusters_zelnik4_n_clust_connu.png
+++ b/AgglClustOutput/limits/bad_clusters_zelnik4_n_clust_connu.png
--- a/DBSCANOutput/interests/b_clusters_complex9_eps_minsamples_hasard.png
+++ b/DBSCANOutput/interests/b_clusters_complex9_eps_minsamples_hasard.png
--- a/DBSCANOutput/interests/b_clusters_spiral_eps_minsamples_hasard.png
+++ b/DBSCANOutput/interests/b_clusters_spiral_eps_minsamples_hasard.png
--- a/DBSCANOutput/interests/clusters_complex9_eps_min_s_automatique_DB.png
+++ b/DBSCANOutput/interests/clusters_complex9_eps_min_s_automatique_DB.png
--- a/DBSCANOutput/interests/clusters_complex9_eps_min_s_automatique_S.png
+++ b/DBSCANOutput/interests/clusters_complex9_eps_min_s_automatique_S.png
--- a/DBSCANOutput/interests/clusters_complex9_eps_minsamples_hasard.png
+++ b/DBSCANOutput/interests/clusters_complex9_eps_minsamples_hasard.png
--- a/DBSCANOutput/interests/clusters_disk-6000n_eps_min_s_automatique_DB.png
+++ b/DBSCANOutput/interests/clusters_disk-6000n_eps_min_s_automatique_DB.png
--- a/DBSCANOutput/interests/clusters_disk-6000n_eps_min_s_automatique_S.png
+++ b/DBSCANOutput/interests/clusters_disk-6000n_eps_min_s_automatique_S.png
--- a/DBSCANOutput/interests/clusters_disk-6000n_eps_minsamples_hasard.png
+++ b/DBSCANOutput/interests/clusters_disk-6000n_eps_minsamples_hasard.png
--- a/DBSCANOutput/interests/clusters_spiral_eps_min_s_automatique_DB.png
+++ b/DBSCANOutput/interests/clusters_spiral_eps_min_s_automatique_DB.png
--- a/DBSCANOutput/interests/clusters_spiral_eps_min_s_automatique_S.png
+++ b/DBSCANOutput/interests/clusters_spiral_eps_min_s_automatique_S.png
--- a/DBSCANOutput/interests/clusters_spiral_eps_minsamples_hasard.png
+++ b/DBSCANOutput/interests/clusters_spiral_eps_minsamples_hasard.png
--- a/DBSCANOutput/interests/coefficients_S_complex9_dbscan.png
+++ b/DBSCANOutput/interests/coefficients_S_complex9_dbscan.png
--- a/DBSCANOutput/interests/coefficients_S_disk-6000n_dbscan.png
+++ b/DBSCANOutput/interests/coefficients_S_disk-6000n_dbscan.png
--- a/DBSCANOutput/interests/coefficients_S_spiral_dbscan.png
+++ b/DBSCANOutput/interests/coefficients_S_spiral_dbscan.png
--- a/DBSCANOutput/interests/indices_DB_complex9_dbscan.png
+++ b/DBSCANOutput/interests/indices_DB_complex9_dbscan.png
--- a/DBSCANOutput/interests/indices_DB_disk-6000n_dbscan.png
+++ b/DBSCANOutput/interests/indices_DB_disk-6000n_dbscan.png
--- a/DBSCANOutput/interests/indices_DB_spiral_dbscan.png
+++ b/DBSCANOutput/interests/indices_DB_spiral_dbscan.png
--- a/DBSCANOutput/limits/b_bad_clusters_aml28_eps_and_minsamples_default.png
+++ b/DBSCANOutput/limits/b_bad_clusters_aml28_eps_and_minsamples_default.png
--- a/DBSCANOutput/limits/b_bad_clusters_atom_eps_and_minsamples_default.png
+++ b/DBSCANOutput/limits/b_bad_clusters_atom_eps_and_minsamples_default.png
--- a/HDBSCANOutput/interests/clusters_disk-6000n_eps_min_s_automatique_DB.png
+++ b/HDBSCANOutput/interests/clusters_disk-6000n_eps_min_s_automatique_DB.png
--- a/HDBSCANOutput/interests/clusters_disk-6000n_eps_min_s_automatique_S.png
+++ b/HDBSCANOutput/interests/clusters_disk-6000n_eps_min_s_automatique_S.png
--- a/HDBSCANOutput/interests/clusters_disk-6000n_eps_minsamples_testing.png
+++ b/HDBSCANOutput/interests/clusters_disk-6000n_eps_minsamples_testing.png
--- a/HDBSCANOutput/interests/coefficients_S_disk-6000n_hdbscan.png
+++ b/HDBSCANOutput/interests/coefficients_S_disk-6000n_hdbscan.png
--- a/HDBSCANOutput/interests/hdbscan_disk-6000n.png
+++ b/HDBSCANOutput/interests/hdbscan_disk-6000n.png
--- a/HDBSCANOutput/interests/indices_DB_disk-6000n_hdbscan.png
+++ b/HDBSCANOutput/interests/indices_DB_disk-6000n_hdbscan.png
--- a/HDBSCANOutput/interests/limit_hdbscan_disk-6000n.png
+++ b/HDBSCANOutput/interests/limit_hdbscan_disk-6000n.png
--- a/HDBSCANOutput/testing/clusters_disk-6000n_eps_minsamples_testing.png
+++ b/HDBSCANOutput/testing/clusters_disk-6000n_eps_minsamples_testing.png
--- a/KMeansOutput/interests/clusters_diamond9_K_automatique_CH.png
+++ b/KMeansOutput/interests/clusters_diamond9_K_automatique_CH.png
--- a/KMeansOutput/interests/clusters_diamond9_K_automatique_DB.png
+++ b/KMeansOutput/interests/clusters_diamond9_K_automatique_DB.png
--- a/KMeansOutput/interests/clusters_diamond9_K_automatique_S.png
+++ b/KMeansOutput/interests/clusters_diamond9_K_automatique_S.png
--- a/KMeansOutput/interests/clusters_diamond9_K_connu.png
+++ b/KMeansOutput/interests/clusters_diamond9_K_connu.png
--- a/KMeansOutput/interests/clusters_spherical_4_3_K_automatique_CH.png
+++ b/KMeansOutput/interests/clusters_spherical_4_3_K_automatique_CH.png
--- a/KMeansOutput/interests/clusters_spherical_4_3_K_automatique_DB.png
+++ b/KMeansOutput/interests/clusters_spherical_4_3_K_automatique_DB.png
--- a/KMeansOutput/interests/clusters_spherical_4_3_K_automatique_S.png
+++ b/KMeansOutput/interests/clusters_spherical_4_3_K_automatique_S.png
--- a/KMeansOutput/interests/clusters_spherical_4_3_K_connu.png
+++ b/KMeansOutput/interests/clusters_spherical_4_3_K_connu.png
--- a/KMeansOutput/interests/coefficients_S_diamond9_K_2_20.png
+++ b/KMeansOutput/interests/coefficients_S_diamond9_K_2_20.png
--- a/KMeansOutput/interests/coefficients_S_spherical_4_3_K_2_20.png
+++ b/KMeansOutput/interests/coefficients_S_spherical_4_3_K_2_20.png
--- a/KMeansOutput/interests/indices_DB_diamond9_K_2_20.png
+++ b/KMeansOutput/interests/indices_DB_diamond9_K_2_20.png
--- a/KMeansOutput/interests/indices_DB_spherical_4_3_K_2_20.png
+++ b/KMeansOutput/interests/indices_DB_spherical_4_3_K_2_20.png
--- a/KMeansOutput/interests/scores_CH_diamond9_K_2_20.png
+++ b/KMeansOutput/interests/scores_CH_diamond9_K_2_20.png
--- a/KMeansOutput/interests/scores_CH_spherical_4_3_K_2_20.png
+++ b/KMeansOutput/interests/scores_CH_spherical_4_3_K_2_20.png
--- a/KMeansOutput/limits/bad_clusters_banana_K_connu.png
+++ b/KMeansOutput/limits/bad_clusters_banana_K_connu.png
--- a/KMeansOutput/limits/bad_clusters_cure-t2-4k_K_connu.png
+++ b/KMeansOutput/limits/bad_clusters_cure-t2-4k_K_connu.png
--- a/README.md
+++ b/README.md
@ -1,3 +1,3 @@
 # tp_apprentissage
-
+Ce dossier contient tous les programmes python écrits dans le cadre du TP Appentissage non supervisé
 Contient les fichiers et dossiers liés au TP en Apprentissage portant sur les algorithmes de clustering.
--- a/pycache/clustering_metrics_evaluation.cpython-37.pyc
+++ b/pycache/clustering_metrics_evaluation.cpython-37.pyc
--- a/pycache/graphs.cpython-37.pyc
+++ b/pycache/graphs.cpython-37.pyc
--- a/artificial/2d-10c.arff
+++ b/artificial/2d-10c.arff
--- a/artificial/2d-20c-no0.arff
+++ b/artificial/2d-20c-no0.arff
--- a/artificial/2d-3c-no123.arff
+++ b/artificial/2d-3c-no123.arff
@ -0,0 +1,725 @@
+% Data from J. Handl
+% http://personalpages.manchester.ac.uk/mbs/Julia.Handl/generators.html
+%
+@RELATION 2d-3c-no123
+
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--- a/artificial/2d-4c-no4.arff
+++ b/artificial/2d-4c-no4.arff
@ -0,0 +1,873 @@
+% Data from J. Handl
+% http://personalpages.manchester.ac.uk/mbs/Julia.Handl/generators.html
+%
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--- a/artificial/2d-4c-no9.arff
+++ b/artificial/2d-4c-no9.arff
@ -0,0 +1,886 @@
+% Data from J. Handl
+% http://personalpages.manchester.ac.uk/mbs/Julia.Handl/generators.html
+%
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--- a/artificial/2d-4c.arff
+++ b/artificial/2d-4c.arff
--- a/artificial/2dnormals.arff
+++ b/artificial/2dnormals.arff
--- a/artificial/2sp2glob.arff
+++ b/artificial/2sp2glob.arff
--- a/artificial/3-spiral.arff
+++ b/artificial/3-spiral.arff
@ -0,0 +1,324 @@
+% Spiral, N=312, M=3, D=2
+% Chang, H. and D.Y. Yeung, Robust path-based spectral clustering. Pattern Recognition, 2008. 41(1): p. 191-203.
+%
+% source: http://cs.joensuu.fi/sipu/datasets/
+%
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--- a/artificial/3MC.arff
+++ b/artificial/3MC.arff
@ -0,0 +1,412 @@
+% Dataset from: http://mail.tku.edu.tw/chchou/others/others.htm
+%
+% M. C. Su, C. H. Chou, and C. C. Hsieh, “Fuzzy C-Means Algorithm with a Point Symmetry Distance,” 
+% International Journal of Fuzzy Systems, vol. 7, no. 4, pp. 175-181, 2005.
+%
+@RELATION 3MC
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--- a/artificial/D31.arff
+++ b/artificial/D31.arff
--- a/artificial/DS-577.arff
+++ b/artificial/DS-577.arff
@ -0,0 +1,589 @@
+% Dataset from: http://mail.tku.edu.tw/chchou/others/others.htm
+%
+% M. C. Su, C. H. Chou, and C. C. Hsieh, “Fuzzy C-Means Algorithm with a Point Symmetry Distance,”
+% International Journal of Fuzzy Systems, vol. 7, no. 4, pp. 175-181, 2005.
+%
+@RELATION DS-577
+
+@ATTRIBUTE x REAL
+@ATTRIBUTE y REAL
+@ATTRIBUTE class {1,2,3}
+
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--- a/artificial/DS-850.arff
+++ b/artificial/DS-850.arff
@ -0,0 +1,862 @@
+% Dataset from: http://mail.tku.edu.tw/chchou/others/others.htm
+%
+% M. C. Su, C. H. Chou, and C. C. Hsieh, “Fuzzy C-Means Algorithm with a Point Symmetry Distance,”
+% International Journal of Fuzzy Systems, vol. 7, no. 4, pp. 175-181, 2005.
+%
+@RELATION DS-850
+%
+@ATTRIBUTE x REAL
+@ATTRIBUTE y REAL
+@ATTRIBUTE CLASS {0,1,2,3,4}
+%
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--- a/artificial/R15.arff
+++ b/artificial/R15.arff
@ -0,0 +1,610 @@
+% R15, N=600, M=15, D=2
+% Veenman, C.J., M.J.T. Reinders, and E. Backer, A maximum variance cluster algorithm. IEEE Trans. Pattern Analysis and Machine Intelligence, 2002. 24(9): p. 1273-1280.
+%
+@RELATION R15
+
+@ATTRIBUTE x REAL
+@ATTRIBUTE y REAL
+@ATTRIBUTE class {1,2,3,4,5,6,7,8,9,10,11,12,13,14,15}
+
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--- a/artificial/aggregation.arff
+++ b/artificial/aggregation.arff
@ -0,0 +1,800 @@
+% Aggregation
+% N=788, M=7, D=2
+% Gionis, A., H. Mannila, and P. Tsaparas, Clustering aggregation. ACM Transactions on Knowledge Discovery from Data (TKDD), 2007. 1(1): p. 1-30.
+% source: http://cs.joensuu.fi/sipu/datasets/
+%
+@relation aggregation
+
+@ATTRIBUTE x REAL
+@ATTRIBUTE y REAL
+@ATTRIBUTE class {1,2,3,4,5,6,7}
+
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--- a/artificial/aml28.arff
+++ b/artificial/aml28.arff
@ -0,0 +1,819 @@
+% The variant allele frequencies of somatic single nucleotide variants
+% from whole genome sequencing of a AML patient at two time points
+%
+% Miller, C. A., White, B. S., Dees, N. D., Griffith, M., Welch, J. S., Griffith, O. L.,
+% Vij, R., Tomasson, M. H., Graubert, T. A., Walter, M. J., et al. (2014).
+% SciClone: Inferring clonal architecture and tracking the spatial and temporal patterns
+% of tumor evolution. PLoS Comput. Biol., 10(8).
+% 
+@relation aml28
+
+@ATTRIBUTE tumor REAL
+@ATTRIBUTE relapse REAL
+@ATTRIBUTE class {1,2,3,4,5}
+
+@data
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--- a/artificial/atom.arff
+++ b/artificial/atom.arff
@ -0,0 +1,820 @@
+% This Fundamental Clustering Problems Suite (FCPS) may serve as a minimal test for new invented cluster algorithms.
+%
+% Every new invented algorithm should at least cluster the FCPS correctly.
+%
+% The data sets may be used as long as the following citation is referenced in any publication
+% concering any of this data:
+%
+% Alfred Ultsch, Clustering with SOM: U*C, in Proc. Workshop on Self Organizing Feature Maps ,pp 31-37 Paris 2005.
+%
+% main problem: different variances and linear not separable
+%
+@relation atom
+
+@ATTRIBUTE x REAL
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+@ATTRIBUTE z REAL
+@ATTRIBUTE class {1,2}
+
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+
--- a/artificial/banana.arff
+++ b/artificial/banana.arff
--- a/artificial/birch-rg1.arff
+++ b/artificial/birch-rg1.arff
--- a/artificial/birch-rg2.arff
+++ b/artificial/birch-rg2.arff
--- a/artificial/birch-rg3.arff
+++ b/artificial/birch-rg3.arff
--- a/artificial/blobs.arff
+++ b/artificial/blobs.arff
@ -0,0 +1,311 @@
+% Data generated using Python package 'sklearn' (sklearn.datasets.samples_generator)
+%
+% make_blobs(n_samples=300, centers=centers, cluster_std=0.5, random_state=0)
+%
+@relation blobs
+
+@ATTRIBUTE x REAL
+@ATTRIBUTE y REAL
+@ATTRIBUTE class {0,1,2}
+
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--- a/artificial/cassini.arff
+++ b/artificial/cassini.arff
--- a/artificial/chainlink.arff
+++ b/artificial/chainlink.arff
--- a/artificial/circle.arff
+++ b/artificial/circle.arff
--- a/artificial/cluto-t4-8k.arff
+++ b/artificial/cluto-t4-8k.arff
--- a/artificial/cluto-t5-8k.arff
+++ b/artificial/cluto-t5-8k.arff
--- a/Show more
+++ b/Show more