Loading dataset
Points: 73; Features 241; Classes 2
Building the HD model
Selecting features.. This may take a while

Feature                                   Importance
--------------------------------------  ------------
s__Ruminococcus_torques                            0
s__Bacteroides_thetaiotaomicron                    1
s__Bacteroides_fragilis                            2
s__Odoribacter_splanchnicus                        2
s__Bacteroides_uniformis                           3
s__Bifidobacterium_adolescentis                    4
s__Bacteroides_vulgatus                            5
s__Phascolarctobacterium_faecium                   6
s__Roseburia_faecis                                6
s__Ruminococcus_gnavus                             6
s__Fusicatenibacter_saccharivorans                 7
s__Flavonifractor_plautii                          8
s__Pyramidobacter_piscolens                        9
s__Bacteroides_caccae                             10
s__Bacteroides_ovatus                             10
s__Lawsonibacter_asaccharolyticus                 11
s__Roseburia_intestinalis                         12
s__Bifidobacterium_pseudocatenulatum              13
s__Clostridium_spiroforme                         14
s__Streptococcus_oralis                           14
s__Blautia_hydrogenotrophica                      15
s__Oscillibacter_sp_CAG_241                       16
s__Phascolarctobacterium_succinatutens            17
s__Anaerotruncus_colihominis                      18
s__Raoultella_ornithinolytica                     18
s__Sanguibacteroides_justesenii                   18
s__Bacteroides_xylanisolvens                      19
s__Bilophila_wadsworthia                          20
s__Coprobacillus_cateniformis                     20
s__Megamonas_funiformis                           21
s__Pseudoflavonifractor_sp_An184                  21
s__Veillonella_infantium                          21
s__Sutterella_parvirubra                          22
s__Streptococcus_infantis                         23
s__Desulfovibrionaceae_bacterium                  24
s__Bacteroides_plebeius                           25
s__Clostridium_leptum                             25
s__Parabacteroides_johnsonii                      26
s__Bacteroides_intestinalis                       27
s__Morganella_morganii                            27
s__Parasutterella_excrementihominis               28
s__Mogibacterium_diversum                         29
s__Bifidobacterium_breve                          30
s__Enorma_massiliensis                            31
s__Lactobacillus_gasseri                          31
s__Haemophilus_sp_HMSC71H05                       32
s__Streptococcus_anginosus_group                  32
s__Bacteroides_nordii                             33
s__Clostridium_citroniae                          33
s__Coprobacter_fastidiosus                        33
s__Ruminococcaceae_bacterium_D16                  33
s__Ruminococcus_callidus                          34
s__Anaerotignum_lactatifermentans                 35
s__Butyricimonas_virosa                           35
s__Bifidobacterium_dentium                        36
s__Citrobacter_youngae                            36
s__Lactobacillus_delbrueckii                      36
s__Bacteroides_finegoldii                         37
s__Clostridium_asparagiforme                      37
s__Lactobacillus_paragasseri                      37
s__Lactobacillus_rogosae                          37
s__Bacteroides_coprophilus                        38
s__Firmicutes_bacterium_CAG_170                   38
s__Hungatella_hathewayi                           38
s__Roseburia_sp_CAG_471                           38
s__Streptococcus_mitis                            38
s__Coprococcus_comes                              39
s__Bacteroides_dorei                              40
s__Holdemania_filiformis                          41
s__Actinomyces_sp_ICM47                           42
s__Blautia_producta                               42
s__Cloacibacillus_porcorum                        42
s__Streptococcus_gordonii                         42
s__Actinomyces_graevenitzii                       43
s__Actinomyces_sp_oral_taxon_181                  44
s__Bacteroides_stercoris                          45
s__Absiella_dolichum                              46
s__Blautia_hansenii                               46
s__Clostridium_sp_CAG_299                         46
s__Eubacterium_ventriosum                         46
s__Haemophilus_parainfluenzae                     46
s__Mitsuokella_multacida                          46
s__Streptococcus_australis                        46
s__Bacteroides_faecis                             47
s__Asaccharobacter_celatus                        48
s__Parabacteroides_merdae                         49
s__Ruthenibacterium_lactatiformans                49
s__Streptococcus_pasteurianus                     50
s__Gordonibacter_pamelaeae                        51
s__Ruminococcaceae_bacterium_D5                   51
s__Dorea_formicigenerans                          52
s__Gemella_sanguinis                              52
s__Eubacterium_sp_CAG_38                          53
s__Intestinibacter_bartlettii                     53
s__Prevotella_stercorea                           53
s__Clostridium_sp_CAG_253                         54
s__Bacteroides_clarus                             55
s__Bifidobacterium_longum                         55
s__Ruminococcus_bicirculans                       55
s__Eikenella_corrodens                            56
s__Gemmiger_formicilis                            56
s__Turicibacter_sanguinis                         56
s__Klebsiella_quasipneumoniae                     57
s__Butyricimonas_synergistica                     58
s__Collinsella_intestinalis                       58
s__Streptococcus_sanguinis                        58
s__Bacteroides_faecis_CAG_32                      59
s__Clostridium_bolteae                            59
s__Clostridium_lavalense                          59
s__Coprococcus_catus                              59
s__Enterococcus_faecalis                          59
s__Intestinimonas_butyriciproducens               59
s__Olsenella_scatoligenes                         59
s__Parvimonas_micra                               59
s__Rothia_mucilaginosa                            59
s__[Collinsella]_massiliensis                     59
s__Alistipes_inops                                60
s__Parabacteroides_sp_CAG_409                     60
s__Clostridium_sp_CAG_167                         61
s__Veillonella_dispar                             61
s__Anaeromassilibacillus_sp_An250                 62
s__Enterococcus_faecium                           63
s__Actinomyces_sp_HMSC035G02                      64
s__Agathobaculum_butyriciproducens                64
s__Alistipes_putredinis                           64
s__Allisonella_histaminiformans                   64
s__Eubacterium_hallii                             64
s__Firmicutes_bacterium_CAG_238                   64
s__Klebsiella_variicola                           64
s__Porphyromonas_asaccharolytica                  64
s__Prevotella_sp_CAG_1185                         64
s__Slackia_isoflavoniconvertens                   64
s__Streptococcus_vestibularis                     64
s__Veillonella_atypica                            64
s__Bacteroides_eggerthii                          65
s__Bacteroides_galacturonicus                     65
s__Mitsuokella_jalaludinii                        65
s__Peptostreptococcus_stomatis                    66
s__Actinomyces_turicensis                         67
s__Eubacterium_ramulus                            68
s__Clostridium_clostridioforme                    69
s__Clostridium_symbiosum                          69
s__Klebsiella_pneumoniae                          69
s__Streptococcus_salivarius                       69
s__Clostridium_bolteae_CAG_59                     70
s__Eisenbergiella_tayi                            70
s__Holdemanella_biformis                          70
s__Klebsiella_oxytoca                             70
s__Megamonas_hypermegale                          70
s__Solobacterium_moorei                           70
s__Streptococcus_parasanguinis                    70
s__Actinomyces_odontolyticus                      71
s__Alloscardovia_omnicolens                       71
s__Barnesiella_intestinihominis                   71
s__Bifidobacterium_animalis                       71
s__Collinsella_stercoris                          71
s__Firmicutes_bacterium_CAG_145                   71
s__Firmicutes_bacterium_CAG_94                    71
s__Lachnospira_pectinoschiza                      71
s__Parabacteroides_goldsteinii                    71
s__Blautia_wexlerae                               72
s__Prevotella_sp_CAG_279                          72
s__Clostridium_innocuum                           73
s__Dialister_invisus                              73
s__Eubacterium_siraeum                            73
s__Eubacterium_sp_CAG_274                         73
s__Ruminococcus_bromii                            74
s__Anaerostipes_hadrus                            75
s__Collinsella_aerofaciens                        75
s__Eubacterium_sp_CAG_251                         75
s__Firmicutes_bacterium_CAG_83                    75
s__Klebsiella_michiganensis                       75
s__Oscillibacter_sp_57_20                         75
s__Eggerthella_lenta                              76
s__Firmicutes_bacterium_CAG_110                   76
s__Alistipes_indistinctus                         77
s__Alistipes_shahii                               77
s__Bacteroides_salyersiae                         77
s__Blautia_sp_CAG_257                             77
s__Catenibacterium_mitsuokai                      77
s__Clostridium_disporicum                         77
s__Paraprevotella_xylaniphila                     77
s__Streptococcus_mutans                           77
s__Phascolarctobacterium_sp_CAG_266               78
s__Fretibacterium_fastidiosum                     79
s__Adlercreutzia_equolifaciens                    80
s__Alloprevotella_tannerae                        80
s__Butyrivibrio_sp_CAG_318                        80
s__Faecalicoccus_pleomorphus                      80
s__Prevotella_sp_CAG_520                          80
s__Slackia_exigua                                 80
s__Tyzzerella_nexilis                             80
s__Veillonella_parvula                            80
s__Erysipelatoclostridium_ramosum                 81
s__Roseburia_hominis                              81
s__Alistipes_onderdonkii                          82
s__Coprococcus_eutactus                           82
s__Dialister_pneumosintes                         83
s__Akkermansia_muciniphila                        84
s__Desulfovibrio_piger                            84
s__Dialister_sp_CAG_357                           84
s__Eisenbergiella_massiliensis                    84
s__Enterobacter_cloacae_complex                   84
s__Firmicutes_bacterium_CAG_95                    84
s__Bifidobacterium_catenulatum                    85
s__Blautia_obeum                                  86
s__Clostridium_saccharolyticum                    86
s__Coprobacter_secundus                           87
s__Acidaminococcus_intestini                      88
s__Bacteroides_massiliensis                       88
s__Eubacterium_sp_CAG_180                         88
s__Bacteroides_cellulosilyticus                   89
s__Clostridium_paraputrificum                     89
s__Bacteroides_coprocola                          90
s__Butyricicoccus_pullicaecorum                   91
s__Clostridium_sp_CAG_58                          91
s__Faecalibacterium_prausnitzii                   91
s__Clostridium_sp_CAG_242                         92
s__Eubacterium_rectale                            92
s__Fusobacterium_nucleatum                        92
s__Megasphaera_elsdenii                           92
s__Parabacteroides_distasonis                     92
s__Roseburia_inulinivorans                        92
s__Sellimonas_intestinalis                        92
s__Streptococcus_thermophilus                     92
s__Turicimonas_muris                              92
s__Victivallis_vadensis                           92
s__Eubacterium_dolichum_CAG_375                   93
s__Paraprevotella_clara                           93
s__Prevotella_copri                               94
s__Bacteroides_sp_CAG_144                         95
s__Alistipes_finegoldii                           96
s__Dorea_longicatena                              96
s__Eubacterium_eligens                            96
s__Lactobacillus_fermentum                        96
s__Ruminococcus_lactaris                          96
s__Gemella_morbillorum                            97
s__Proteobacteria_bacterium_CAG_139               98
s__Bifidobacterium_bifidum                        99
s__Monoglobus_pectinilyticus                      99
s__Escherichia_coli                              100

  Importance    Score (accuracy)
------------  ------------------
           0              0
           1              0.6181
           2              0.6443
           3              0.7248
           4              0.699
           5              0.6429
           6              0.6444
           7              0.6438
           8              0.6971
           9              0.7105
          10              0.7381
          11              0.6971
          12              0.7381
          13              0.7248
          14              0.7252
          15              0.739
          16              0.7657
          17              0.7381
          18              0.6848
          19              0.6981
          20              0.6981
          21              0.6981
          22              0.6981
          23              0.7114
          24              0.7114
          25              0.6986
          26              0.739
          27              0.739
          28              0.7381
          29              0.7524
          30              0.7524
          31              0.739
          32              0.739
          33              0.739
          34              0.7524
          35              0.7524
          36              0.7524
          37              0.7524
          38              0.7524
          39              0.7524
          40              0.739
          41              0.7257
          42              0.7119
          43              0.7257
          44              0.7257
          45              0.7381
          46              0.7263
          47              0.74
          48              0.74
          49              0.7262
          50              0.7267
          51              0.7267
          52              0.7119
          53              0.6984
          54              0.7124
          55              0.6987
          56              0.7117
          57              0.7267
          58              0.7121
          59              0.6982
          60              0.7119
          61              0.7119
          62              0.7124
          63              0.7267
          64              0.6846
          65              0.6984
          66              0.699
          67              0.699
          68              0.699
          69              0.6986
          70              0.699
          71              0.6853
          72              0.6852
          73              0.6719
          74              0.659
          75              0.6308
          76              0.6319
          77              0.6308
          78              0.6581
          79              0.659
          80              0.6449
          81              0.6586
          82              0.6448
          83              0.6448
          84              0.6176
          85              0.6448
          86              0.6171
          87              0.6305
          88              0.6165
          89              0.6319
          90              0.6181
          91              0.6038
          92              0.5758
          93              0.6038
          94              0.5752
          95              0.5771
          96              0.549
          97              0.5771
          98              0.5771
          99              0.5629
         100              0.5762

Best importance: 16
Selected features: 22

Features
------------------------------------
s__Bacteroides_caccae
s__Bacteroides_fragilis
s__Bacteroides_ovatus
s__Bacteroides_thetaiotaomicron
s__Bacteroides_uniformis
s__Bacteroides_vulgatus
s__Bifidobacterium_adolescentis
s__Bifidobacterium_pseudocatenulatum
s__Blautia_hydrogenotrophica
s__Clostridium_spiroforme
s__Flavonifractor_plautii
s__Fusicatenibacter_saccharivorans
s__Lawsonibacter_asaccharolyticus
s__Odoribacter_splanchnicus
s__Oscillibacter_sp_CAG_241
s__Phascolarctobacterium_faecium
s__Pyramidobacter_piscolens
s__Roseburia_faecis
s__Roseburia_intestinalis
s__Ruminococcus_gnavus
s__Ruminococcus_torques
s__Streptococcus_oralis

Total ML models: 10530

Building a model with the selected features only
Cross-validating model with 5 folds

Class labels: ['CRC', 'control']

Fold 1 (0 retrainings)
	Error rate: 0.20689655172413793
	Accuracy: 0.8000
	F1: 0.7982
	Precision: 0.8037
	Recall: 0.8000
	Matthews Corr. Coeff.: 0.6001
	Confusion Matrix:
		TN: 5
		FP: 2
		FN: 1
		TP: 7

Fold 2 (0 retrainings)
	Error rate: 0.2413793103448276
	Accuracy: 0.6667
	F1: 0.6667
	Precision: 0.6726
	Recall: 0.6667
	Matthews Corr. Coeff.: 0.3393
	Confusion Matrix:
		TN: 5
		FP: 2
		FN: 3
		TP: 5

Fold 3 (1 retrainings)
	Error rate: 0.10344827586206896
	Accuracy: 0.7333
	F1: 0.7259
	Precision: 0.7467
	Recall: 0.7333
	Matthews Corr. Coeff.: 0.4725
	Confusion Matrix:
		TN: 4
		FP: 3
		FN: 1
		TP: 7

Fold 4 (0 retrainings)
	Error rate: 0.23728813559322035
	Accuracy: 0.5714
	F1: 0.5714
	Precision: 0.5714
	Recall: 0.5714
	Matthews Corr. Coeff.: 0.1250
	Confusion Matrix:
		TN: 3
		FP: 3
		FN: 3
		TP: 5

Fold 5 (0 retrainings)
	Error rate: 0.1864406779661017
	Accuracy: 0.7143
	F1: 0.7083
	Precision: 0.7333
	Recall: 0.7143
	Matthews Corr. Coeff.: 0.4472
	Confusion Matrix:
		TN: 4
		FP: 3
		FN: 1
		TP: 6

Retrainings: 0.2000 (0.4472 stdev)
Error Rate: 0.1951 (0.0560 stdev)
Accuracy: 0.6971 (0.0850 stdev)
F1: 0.6941 (0.0834 stdev)
Precision: 0.7056 (0.0883 stdev)
Recall: 0.6971 (0.0850 stdev)
Matthews Corr. Coeff.: 0.3968 (0.1780 stdev)
Total elapsed time: 696s
