R/rags2ridges-package.R
ADdata.RdADdata contains 3 objects related to metabolomics data on patients
with Alzheimer's Disease (AD).
de Leeuw, F., Peeters, C.F.W., Kester, M.I., Harms, A.C., Struys, E., Hankemeijer, T., van Vlijmen, H.W.T., van Duijn, C.M., Scheltens, P., Demirkan, A., van de Wiel, M.A., van der Flier, W.M., and Teunissen, C.E. (2017). Blood-based metabolic signatures in Alzheimer's Disease. Alzheimer's & Dementia: Diagnosis, Assessment & Disease Monitoring, 8: 196-207.
ADmetabolites is a matrix containing metabolic expressions of
230 metabolites (rows) on 127 samples (columns).
sampleInfo is a data.frame containing information on the
samples. Information pertains to diagnosis: AD class 1 or AD class 2.
variableInfo is a data.frame containing information on the
metabolic features. Information pertains to compound families: Amines,
organic acids, lipids, and oxidative stress compounds.
See description.
data(ADdata)
## Look at sample information
sampleInfo
#> Diagnosis ApoEClass
#> Sample_1 Probable AD Class 1
#> Sample_2 Probable AD Class 1
#> Sample_3 Probable AD Class 2
#> Sample_4 Probable AD Class 2
#> Sample_5 Probable AD Class 2
#> Sample_6 Probable AD Class 1
#> Sample_7 Probable AD Class 2
#> Sample_8 Probable AD Class 2
#> Sample_9 Probable AD Class 2
#> Sample_10 Probable AD Class 2
#> Sample_11 Probable AD Class 1
#> Sample_12 Probable AD Class 2
#> Sample_13 Probable AD Class 2
#> Sample_14 Probable AD Class 2
#> Sample_15 Probable AD Class 1
#> Sample_16 Probable AD Class 2
#> Sample_17 Probable AD Class 2
#> Sample_18 Probable AD Class 1
#> Sample_19 Probable AD Class 1
#> Sample_20 Probable AD Class 2
#> Sample_21 Probable AD Class 2
#> Sample_22 Probable AD Class 2
#> Sample_23 Probable AD Class 1
#> Sample_24 Probable AD Class 2
#> Sample_25 Probable AD Class 2
#> Sample_26 Probable AD Class 1
#> Sample_27 Probable AD Class 1
#> Sample_28 Probable AD Class 1
#> Sample_29 Probable AD Class 1
#> Sample_30 Probable AD Class 1
#> Sample_31 Probable AD Class 2
#> Sample_32 Probable AD Class 2
#> Sample_33 Probable AD Class 1
#> Sample_34 Probable AD Class 2
#> Sample_35 Probable AD Class 2
#> Sample_36 Probable AD Class 2
#> Sample_37 Probable AD Class 2
#> Sample_38 Probable AD Class 1
#> Sample_39 Probable AD Class 1
#> Sample_40 Probable AD Class 1
#> Sample_41 Probable AD Class 2
#> Sample_42 Probable AD Class 2
#> Sample_43 Probable AD Class 2
#> Sample_44 Probable AD Class 2
#> Sample_45 Probable AD Class 2
#> Sample_46 Probable AD Class 1
#> Sample_47 Probable AD Class 1
#> Sample_48 Probable AD Class 1
#> Sample_49 Probable AD Class 2
#> Sample_50 Probable AD Class 1
#> Sample_51 Probable AD Class 2
#> Sample_52 Probable AD Class 2
#> Sample_53 Probable AD Class 1
#> Sample_54 Probable AD Class 2
#> Sample_55 Probable AD Class 2
#> Sample_56 Probable AD Class 1
#> Sample_57 Probable AD Class 2
#> Sample_58 Probable AD Class 2
#> Sample_59 Probable AD Class 1
#> Sample_60 Probable AD Class 2
#> Sample_61 Probable AD Class 2
#> Sample_62 Probable AD Class 2
#> Sample_63 Probable AD Class 2
#> Sample_64 Probable AD Class 2
#> Sample_65 Probable AD Class 2
#> Sample_66 Probable AD Class 2
#> Sample_67 Probable AD Class 2
#> Sample_68 Probable AD Class 1
#> Sample_69 Probable AD Class 2
#> Sample_70 Probable AD Class 1
#> Sample_71 Probable AD Class 2
#> Sample_72 Probable AD Class 2
#> Sample_73 Probable AD Class 2
#> Sample_74 Probable AD Class 1
#> Sample_75 Probable AD Class 2
#> Sample_76 Probable AD Class 2
#> Sample_77 Probable AD Class 2
#> Sample_78 Probable AD Class 2
#> Sample_79 Probable AD Class 2
#> Sample_80 Probable AD Class 2
#> Sample_81 Probable AD Class 2
#> Sample_82 Probable AD Class 1
#> Sample_83 Probable AD Class 1
#> Sample_84 Probable AD Class 2
#> Sample_85 Probable AD Class 1
#> Sample_86 Probable AD Class 2
#> Sample_87 Probable AD Class 1
#> Sample_88 Probable AD Class 1
#> Sample_89 Probable AD Class 2
#> Sample_90 Probable AD Class 2
#> Sample_91 Probable AD Class 2
#> Sample_92 Probable AD Class 2
#> Sample_93 Probable AD Class 2
#> Sample_94 Probable AD Class 2
#> Sample_95 Probable AD Class 2
#> Sample_96 Probable AD Class 2
#> Sample_97 Probable AD Class 2
#> Sample_98 Probable AD Class 2
#> Sample_99 Probable AD Class 2
#> Sample_100 Probable AD Class 2
#> Sample_101 Probable AD Class 2
#> Sample_102 Probable AD Class 2
#> Sample_103 Probable AD Class 2
#> Sample_104 Probable AD Class 1
#> Sample_105 Probable AD Class 2
#> Sample_106 Probable AD Class 2
#> Sample_107 Probable AD Class 2
#> Sample_108 Probable AD Class 2
#> Sample_109 Probable AD Class 2
#> Sample_110 Probable AD Class 2
#> Sample_111 Probable AD Class 1
#> Sample_112 Probable AD Class 1
#> Sample_113 Probable AD Class 2
#> Sample_114 Probable AD Class 1
#> Sample_115 Probable AD Class 2
#> Sample_116 Probable AD Class 2
#> Sample_117 Probable AD Class 2
#> Sample_118 Probable AD Class 2
#> Sample_119 Probable AD Class 1
#> Sample_120 Probable AD Class 2
#> Sample_121 Probable AD Class 1
#> Sample_122 Probable AD Class 2
#> Sample_123 Probable AD Class 2
#> Sample_124 Probable AD Class 1
#> Sample_125 Probable AD Class 2
#> Sample_126 Probable AD Class 1
#> Sample_127 Probable AD Class 2
## Look at feature information
variableInfo
#> Family FamilyCode
#> Amine_1 Amines 1
#> Amine_2 Amines 1
#> Amine_3 Amines 1
#> Amine_4 Amines 1
#> Amine_5 Amines 1
#> Amine_6 Amines 1
#> Amine_7 Amines 1
#> Amine_8 Amines 1
#> Amine_9 Amines 1
#> Amine_10 Amines 1
#> Amine_11 Amines 1
#> Amine_12 Amines 1
#> Amine_13 Amines 1
#> Amine_14 Amines 1
#> Amine_15 Amines 1
#> Amine_16 Amines 1
#> Amine_17 Amines 1
#> Amine_18 Amines 1
#> Amine_19 Amines 1
#> Amine_20 Amines 1
#> Amine_21 Amines 1
#> Amine_22 Amines 1
#> Amine_23 Amines 1
#> Amine_24 Amines 1
#> Amine_25 Amines 1
#> Amine_26 Amines 1
#> Amine_27 Amines 1
#> Amine_28 Amines 1
#> Amine_29 Amines 1
#> Amine_30 Amines 1
#> Amine_31 Amines 1
#> Amine_32 Amines 1
#> Amine_33 Amines 1
#> Amine_34 Amines 1
#> Amine_35 Amines 1
#> Amine_36 Amines 1
#> Amine_37 Amines 1
#> Amine_38 Amines 1
#> Amine_39 Amines 1
#> Amine_40 Amines 1
#> Amine_41 Amines 1
#> Amine_42 Amines 1
#> Amine_43 Amines 1
#> Amine_44 Amines 1
#> Amine_45 Amines 1
#> Amine_46 Amines 1
#> Amine_47 Amines 1
#> Amine_48 Amines 1
#> Amine_49 Amines 1
#> Amine_50 Amines 1
#> Amine_51 Amines 1
#> Amine_52 Amines 1
#> Amine_53 Amines 1
#> Org.Acid_1 Organic Acids 2
#> Org.Acid_2 Organic Acids 2
#> Org.Acid_3 Organic Acids 2
#> Org.Acid_4 Organic Acids 2
#> Org.Acid_5 Organic Acids 2
#> Org.Acid_6 Organic Acids 2
#> Org.Acid_7 Organic Acids 2
#> Org.Acid_8 Organic Acids 2
#> Org.Acid_9 Organic Acids 2
#> Org.Acid_10 Organic Acids 2
#> Org.Acid_11 Organic Acids 2
#> Org.Acid_12 Organic Acids 2
#> Org.Acid_13 Organic Acids 2
#> Org.Acid_14 Organic Acids 2
#> Org.Acid_15 Organic Acids 2
#> Org.Acid_16 Organic Acids 2
#> Org.Acid_17 Organic Acids 2
#> Org.Acid_18 Organic Acids 2
#> Org.Acid_19 Organic Acids 2
#> Org.Acid_20 Organic Acids 2
#> Org.Acid_21 Organic Acids 2
#> Org.Acid_22 Organic Acids 2
#> Lip_1 Lipids 3
#> Lip_2 Lipids 3
#> Lip_3 Lipids 3
#> Lip_4 Lipids 3
#> Lip_5 Lipids 3
#> Lip_6 Lipids 3
#> Lip_7 Lipids 3
#> Lip_8 Lipids 3
#> Lip_9 Lipids 3
#> Lip_10 Lipids 3
#> Lip_11 Lipids 3
#> Lip_12 Lipids 3
#> Lip_13 Lipids 3
#> Lip_14 Lipids 3
#> Lip_15 Lipids 3
#> Lip_16 Lipids 3
#> Lip_17 Lipids 3
#> Lip_18 Lipids 3
#> Lip_19 Lipids 3
#> Lip_20 Lipids 3
#> Lip_21 Lipids 3
#> Lip_22 Lipids 3
#> Lip_23 Lipids 3
#> Lip_24 Lipids 3
#> Lip_25 Lipids 3
#> Lip_26 Lipids 3
#> Lip_27 Lipids 3
#> Lip_28 Lipids 3
#> Lip_29 Lipids 3
#> Lip_30 Lipids 3
#> Lip_31 Lipids 3
#> Lip_32 Lipids 3
#> Lip_33 Lipids 3
#> Lip_34 Lipids 3
#> Lip_35 Lipids 3
#> Lip_36 Lipids 3
#> Lip_37 Lipids 3
#> Lip_38 Lipids 3
#> Lip_39 Lipids 3
#> Lip_40 Lipids 3
#> Lip_41 Lipids 3
#> Lip_42 Lipids 3
#> Lip_43 Lipids 3
#> Lip_44 Lipids 3
#> Lip_45 Lipids 3
#> Lip_46 Lipids 3
#> Lip_47 Lipids 3
#> Lip_48 Lipids 3
#> Lip_49 Lipids 3
#> Lip_50 Lipids 3
#> Lip_51 Lipids 3
#> Lip_52 Lipids 3
#> Lip_53 Lipids 3
#> Lip_54 Lipids 3
#> Lip_55 Lipids 3
#> Lip_56 Lipids 3
#> Lip_57 Lipids 3
#> Lip_58 Lipids 3
#> Lip_59 Lipids 3
#> Lip_60 Lipids 3
#> Lip_61 Lipids 3
#> Lip_62 Lipids 3
#> Lip_63 Lipids 3
#> Lip_64 Lipids 3
#> Lip_65 Lipids 3
#> Lip_66 Lipids 3
#> Lip_67 Lipids 3
#> Lip_68 Lipids 3
#> Lip_69 Lipids 3
#> Lip_70 Lipids 3
#> Lip_71 Lipids 3
#> Lip_72 Lipids 3
#> Lip_73 Lipids 3
#> Lip_74 Lipids 3
#> Lip_75 Lipids 3
#> Lip_76 Lipids 3
#> Lip_77 Lipids 3
#> Lip_78 Lipids 3
#> Lip_79 Lipids 3
#> Lip_80 Lipids 3
#> Lip_81 Lipids 3
#> Lip_82 Lipids 3
#> Lip_83 Lipids 3
#> Lip_84 Lipids 3
#> Lip_85 Lipids 3
#> Lip_86 Lipids 3
#> Lip_87 Lipids 3
#> Lip_88 Lipids 3
#> Lip_89 Lipids 3
#> Lip_90 Lipids 3
#> Lip_91 Lipids 3
#> Lip_92 Lipids 3
#> Lip_93 Lipids 3
#> Lip_94 Lipids 3
#> Lip_95 Lipids 3
#> Lip_96 Lipids 3
#> Lip_97 Lipids 3
#> Lip_98 Lipids 3
#> Lip_99 Lipids 3
#> Lip_100 Lipids 3
#> Lip_101 Lipids 3
#> Lip_102 Lipids 3
#> Lip_103 Lipids 3
#> Lip_104 Lipids 3
#> Lip_105 Lipids 3
#> Lip_106 Lipids 3
#> Lip_107 Lipids 3
#> Lip_108 Lipids 3
#> Lip_109 Lipids 3
#> Lip_110 Lipids 3
#> Lip_111 Lipids 3
#> Lip_112 Lipids 3
#> Lip_113 Lipids 3
#> Lip_114 Lipids 3
#> Lip_115 Lipids 3
#> Lip_116 Lipids 3
#> Ox.Stress_1 Oxidative Stress 4
#> Ox.Stress_2 Oxidative Stress 4
#> Ox.Stress_3 Oxidative Stress 4
#> Ox.Stress_4 Oxidative Stress 4
#> Ox.Stress_5 Oxidative Stress 4
#> Ox.Stress_6 Oxidative Stress 4
#> Ox.Stress_7 Oxidative Stress 4
#> Ox.Stress_8 Oxidative Stress 4
#> Ox.Stress_9 Oxidative Stress 4
#> Ox.Stress_10 Oxidative Stress 4
#> Ox.Stress_11 Oxidative Stress 4
#> Ox.Stress_12 Oxidative Stress 4
#> Ox.Stress_13 Oxidative Stress 4
#> Ox.Stress_14 Oxidative Stress 4
#> Ox.Stress_15 Oxidative Stress 4
#> Ox.Stress_16 Oxidative Stress 4
#> Ox.Stress_17 Oxidative Stress 4
#> Ox.Stress_18 Oxidative Stress 4
#> Ox.Stress_19 Oxidative Stress 4
#> Ox.Stress_20 Oxidative Stress 4
#> Ox.Stress_21 Oxidative Stress 4
#> Ox.Stress_22 Oxidative Stress 4
#> Ox.Stress_23 Oxidative Stress 4
#> Ox.Stress_24 Oxidative Stress 4
#> Ox.Stress_25 Oxidative Stress 4
#> Ox.Stress_26 Oxidative Stress 4
#> Ox.Stress_27 Oxidative Stress 4
#> Ox.Stress_28 Oxidative Stress 4
#> Ox.Stress_29 Oxidative Stress 4
#> Ox.Stress_30 Oxidative Stress 4
#> Ox.Stress_31 Oxidative Stress 4
#> Ox.Stress_32 Oxidative Stress 4
#> Ox.Stress_33 Oxidative Stress 4
#> Ox.Stress_34 Oxidative Stress 4
#> Ox.Stress_35 Oxidative Stress 4
#> Ox.Stress_36 Oxidative Stress 4
#> Ox.Stress_37 Oxidative Stress 4
#> Ox.Stress_38 Oxidative Stress 4
#> Ox.Stress_39 Oxidative Stress 4