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

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

  Importance    Score (accuracy)
------------  ------------------
           0              0
           1              0.7533
           2              0.7533
           3              0.7524
           4              0.8067
           5              0.7933
           6              0.7943
           7              0.7781
           8              0.8067
           9              0.7943
          10              0.821
          11              0.8219
          12              0.8229
          13              0.8229
          14              0.8362
          15              0.8089
          16              0.8219
          17              0.8219
          18              0.7943
          19              0.8076
          20              0.821
          21              0.82
          22              0.7952
          23              0.809
          24              0.8229
          25              0.8076
          26              0.8067
          27              0.7937
          28              0.7933
          29              0.8067
          30              0.7933
          31              0.7933
          32              0.7933
          33              0.7933
          34              0.7531
          35              0.7533
          36              0.78
          37              0.78
          38              0.7662
          39              0.7533
          40              0.7667
          41              0.74
          42              0.7538
          43              0.74
          44              0.7686
          45              0.7681
          46              0.7819
          47              0.7543
          48              0.78
          49              0.78
          50              0.7538
          51              0.7675
          52              0.7671
          53              0.7672
          54              0.781
          55              0.7529
          56              0.7662
          57              0.7667
          58              0.7524
          59              0.7535
          60              0.7676
          61              0.7676
          62              0.7676
          63              0.7676
          64              0.7543
          65              0.7676
          66              0.7538
          67              0.7676
          68              0.7538
          69              0.7405
          70              0.7124
          71              0.7262
          72              0.74
          73              0.7394
          74              0.7533
          75              0.7533
          76              0.7533
          77              0.7533
          78              0.7396
          79              0.74
          80              0.74
          81              0.7267
          82              0.74
          83              0.7267
          84              0.7
          85              0.6995
          86              0.6724
          87              0.6581
          88              0.6581
          89              0.6714
          90              0.6581
          91              0.6581
          92              0.6581
          93              0.6581
          94              0.6714

Best importance: 14
Selected features: 17

Features
-----------------------------
s__Bacteroides_caccae
s__Blautia_sp_CAG_257
s__Clostridium_lavalense
s__Dorea_longicatena
s__Eisenbergiella_tayi
s__Fretibacterium_fastidiosum
s__Gemella_morbillorum
s__Klebsiella_pneumoniae
s__Parvimonas_micra
s__Prevotella_stercorea
s__Ruminococcus_lactaris
s__Solobacterium_moorei
s__Streptococcus_pasteurianus
s__Streptococcus_salivarius
s__Turicimonas_muris
s__Veillonella_atypica
s__[Collinsella]_massiliensis

Total ML models: 9115

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

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

Fold 1 (1 retrainings)
	Error rate: 0.06896551724137931
	Accuracy: 0.7333
	F1: 0.7333
	Precision: 0.7333
	Recall: 0.7333
	Matthews Corr. Coeff.: 0.4643
	Confusion Matrix:
		TN: 5
		FP: 2
		FN: 2
		TP: 6

Fold 2 (0 retrainings)
	Error rate: 0.15517241379310345
	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 3 (1 retrainings)
	Error rate: 0.15517241379310345
	Accuracy: 0.8667
	F1: 0.8667
	Precision: 0.8667
	Recall: 0.8667
	Matthews Corr. Coeff.: 0.7321
	Confusion Matrix:
		TN: 6
		FP: 1
		FN: 1
		TP: 7

Fold 4 (3 retrainings)
	Error rate: 0.13559322033898305
	Accuracy: 0.8571
	F1: 0.8508
	Precision: 0.8857
	Recall: 0.8571
	Matthews Corr. Coeff.: 0.7303
	Confusion Matrix:
		TN: 4
		FP: 2
		FN: 0
		TP: 8

Fold 5 (1 retrainings)
	Error rate: 0.1016949152542373
	Accuracy: 0.7143
	F1: 0.7083
	Precision: 0.7333
	Recall: 0.7143
	Matthews Corr. Coeff.: 0.4472
	Confusion Matrix:
		TN: 6
		FP: 1
		FN: 3
		TP: 4

Retrainings: 1.2000 (1.0954 stdev)
Error Rate: 0.1233 (0.0374 stdev)
Accuracy: 0.7943 (0.0695 stdev)
F1: 0.7915 (0.0698 stdev)
Precision: 0.8046 (0.0717 stdev)
Recall: 0.7943 (0.0695 stdev)
Matthews Corr. Coeff.: 0.5948 (0.1379 stdev)
Total elapsed time: 281s
