s_date_Eti creates design matrices for etiology regressions;
Usage
s_date_Eti(Rdate, Y, basis = "ps", dof = ifelse(basis == "ncs", 5, 10), ...)Arguments
- Rdate
a vector of dates of
Rformat- Y
Binary case/control status;
1for case;0for controls- basis
ncsfor natural cubic splines;psfor penalized-splines based on B-spline basis functions (NB: baker does not recommend setting ncs using this function; use splines::ns)- dof
Degree-of-freedom for the bases. For
ncsbasis,dofis the number of columns; Forpsbasis, the number of columns isdofifintercept=TRUE;dof-1ifFALSE.- ...
Other arguments as in
splines::bs()
Examples
data("data_nplcm_reg_nest")
s_date_Eti(data_nplcm_reg_nest$X$DATE,data_nplcm_reg_nest$Y,basis='ps',dof=7)
#> [,1] [,2] [,3] [,4] [,5]
#> [1,] 5.026841e-01 8.793074e-02 3.151131e-03 0.000000e+00 0.000000e+00
#> [2,] 0.000000e+00 6.856722e-02 6.394224e-01 2.886611e-01 3.349339e-03
#> [3,] 7.226466e-02 5.489224e-01 3.739203e-01 4.892581e-03 0.000000e+00
#> [4,] 1.856411e-01 5.964994e-01 2.178085e-01 5.096137e-05 0.000000e+00
#> [5,] 0.000000e+00 8.025999e-04 3.149684e-01 5.721754e-01 1.120535e-01
#> [6,] 7.424248e-04 2.487012e-01 6.589731e-01 9.158328e-02 0.000000e+00
#> [7,] 7.854934e-02 1.142119e-03 3.675324e-06 0.000000e+00 0.000000e+00
#> [8,] 1.524785e-01 5.951963e-01 2.520067e-01 3.185550e-04 0.000000e+00
#> [9,] 0.000000e+00 0.000000e+00 2.706191e-02 2.815839e-01 5.652888e-01
#> [10,] 0.000000e+00 0.000000e+00 1.287347e-01 5.362001e-01 3.308551e-01
#> [11,] 5.793337e-01 2.840138e-01 2.520905e-02 0.000000e+00 0.000000e+00
#> [12,] 4.011060e-02 2.879976e-04 4.594155e-07 0.000000e+00 0.000000e+00
#> [13,] 0.000000e+00 1.343089e-01 6.827708e-01 1.828485e-01 7.178796e-05
#> [14,] 0.000000e+00 0.000000e+00 6.979599e-04 3.288039e-02 3.464449e-01
#> [15,] 0.000000e+00 1.406283e-01 6.838164e-01 1.755186e-01 3.675544e-05
#> [16,] 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
#> [17,] 5.939398e-03 3.397293e-01 6.025610e-01 5.177026e-02 0.000000e+00
#> [18,] 0.000000e+00 0.000000e+00 1.185763e-01 5.240336e-01 3.511467e-01
#> [19,] 5.640371e-01 1.429801e-01 7.178368e-03 0.000000e+00 0.000000e+00
#> [20,] 3.822371e-01 5.126104e-01 9.923376e-02 0.000000e+00 0.000000e+00
#> [21,] 0.000000e+00 5.386487e-02 6.166298e-01 3.233901e-01 6.115186e-03
#> [22,] 5.939398e-03 3.397293e-01 6.025610e-01 5.177026e-02 0.000000e+00
#> [23,] 5.521882e-01 3.408557e-01 3.652675e-02 0.000000e+00 0.000000e+00
#> [24,] 0.000000e+00 1.028925e-05 2.393654e-01 5.878950e-01 1.727293e-01
#> [25,] 0.000000e+00 3.261289e-03 3.781315e-01 5.424252e-01 7.618196e-02
#> [26,] 5.450762e-01 3.521160e-01 3.913485e-02 0.000000e+00 0.000000e+00
#> [27,] 0.000000e+00 1.175707e-02 4.689786e-01 4.796827e-01 3.958159e-02
#> [28,] 9.280310e-05 2.063618e-01 6.760552e-01 1.174901e-01 0.000000e+00
#> [29,] 8.734554e-02 5.645733e-01 3.449467e-01 3.134470e-03 0.000000e+00
#> [30,] 0.000000e+00 2.302982e-04 2.802895e-01 5.826076e-01 1.368727e-01
#> [31,] 3.183146e-02 4.724744e-01 4.789911e-01 1.670299e-02 0.000000e+00
#> [32,] 5.450762e-01 3.521160e-01 3.913485e-02 0.000000e+00 0.000000e+00
#> [33,] 1.169052e-01 5.843780e-01 2.974807e-01 1.236142e-03 0.000000e+00
#> [34,] 9.280310e-05 2.063618e-01 6.760552e-01 1.174901e-01 0.000000e+00
#> [35,] 9.280310e-02 5.691902e-01 3.353475e-01 2.659226e-03 0.000000e+00
#> [36,] 7.708077e-02 5.544289e-01 3.642420e-01 4.248294e-03 0.000000e+00
#> [37,] 5.842499e-01 1.840920e-01 1.120469e-02 0.000000e+00 0.000000e+00
#> [38,] 0.000000e+00 0.000000e+00 1.287347e-01 5.362001e-01 3.308551e-01
#> [39,] 0.000000e+00 0.000000e+00 1.560800e-03 5.439600e-02 4.177710e-01
#> [40,] 3.347505e-01 5.428028e-01 1.204330e-01 0.000000e+00 0.000000e+00
#> [41,] 0.000000e+00 0.000000e+00 2.189536e-02 2.524846e-01 5.721367e-01
#> [42,] 5.939398e-03 3.397293e-01 6.025610e-01 5.177026e-02 0.000000e+00
#> [43,] 0.000000e+00 0.000000e+00 4.391715e-03 1.020278e-01 5.076801e-01
#> [44,] 9.033083e-03 3.674611e-01 5.808930e-01 4.261273e-02 0.000000e+00
#> [45,] 0.000000e+00 6.146260e-04 3.061697e-01 5.752658e-01 1.179499e-01
#> [46,] 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
#> [47,] 0.000000e+00 0.000000e+00 2.541502e-06 8.479419e-04 6.560901e-02
#> [48,] 5.793337e-01 2.840138e-01 2.520905e-02 0.000000e+00 0.000000e+00
#> [49,] 5.640371e-01 1.429801e-01 7.178368e-03 0.000000e+00 0.000000e+00
#> [50,] 0.000000e+00 1.406283e-01 6.838164e-01 1.755186e-01 3.675544e-05
#> [51,] 5.842499e-01 1.840920e-01 1.120469e-02 0.000000e+00 0.000000e+00
#> [52,] 0.000000e+00 0.000000e+00 4.391715e-03 1.020278e-01 5.076801e-01
#> [53,] 1.629771e-02 4.128562e-01 5.409805e-01 2.986563e-02 0.000000e+00
#> [54,] 7.708077e-02 5.544289e-01 3.642420e-01 4.248294e-03 0.000000e+00
#> [55,] 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
#> [56,] 0.000000e+00 7.261944e-02 6.445068e-01 2.800522e-01 2.821554e-03
#> [57,] 1.235209e-01 5.873025e-01 2.881910e-01 9.855775e-04 0.000000e+00
#> [58,] 4.193528e-01 5.015933e-02 1.260636e-03 0.000000e+00 0.000000e+00
#> [59,] 0.000000e+00 2.609031e-05 2.472912e-01 5.875727e-01 1.651100e-01
#> [60,] 0.000000e+00 0.000000e+00 2.541502e-03 7.338746e-02 4.615156e-01
#> [61,] 0.000000e+00 0.000000e+00 1.137039e-01 5.175645e-01 3.612632e-01
#> [62,] 3.463857e-02 4.804347e-01 4.697075e-01 1.521919e-02 0.000000e+00
#> [63,] 4.173161e-01 4.866855e-01 8.508054e-02 0.000000e+00 0.000000e+00
#> [64,] 0.000000e+00 0.000000e+00 8.327993e-02 4.659646e-01 4.300068e-01
#> [65,] 2.037214e-03 2.844742e-01 6.396479e-01 7.384067e-02 0.000000e+00
#> [66,] 0.000000e+00 7.682824e-02 6.493295e-01 2.714899e-01 2.352348e-03
#> [67,] 0.000000e+00 0.000000e+00 1.450349e-01 5.523776e-01 3.005158e-01
#> [68,] 0.000000e+00 9.042387e-02 6.621454e-01 2.461689e-01 1.261745e-03
#> [69,] 5.450762e-01 3.521160e-01 3.913485e-02 0.000000e+00 0.000000e+00
#> [70,] 5.026841e-01 8.793074e-02 3.151131e-03 0.000000e+00 0.000000e+00
#> [71,] 4.929186e-01 4.176768e-01 5.742694e-02 0.000000e+00 0.000000e+00
#> [72,] 3.466168e-01 5.357678e-01 1.148755e-01 0.000000e+00 0.000000e+00
#> [73,] 0.000000e+00 0.000000e+00 1.043633e-01 5.039020e-01 3.813559e-01
#> [74,] 3.291505e-01 2.657865e-02 4.594155e-04 0.000000e+00 0.000000e+00
#> [75,] 2.880496e-01 5.671272e-01 1.444549e-01 0.000000e+00 0.000000e+00
#> [76,] 1.153435e-01 2.547556e-03 1.240422e-05 0.000000e+00 0.000000e+00
#> [77,] 5.479424e-01 1.236294e-01 5.589709e-03 0.000000e+00 0.000000e+00
#> [78,] 0.000000e+00 2.455600e-02 5.372856e-01 4.175196e-01 2.063875e-02
#> [79,] 5.275643e-01 1.052401e-01 4.254647e-03 0.000000e+00 0.000000e+00
#> [80,] 0.000000e+00 2.325037e-03 3.598858e-01 5.522886e-01 8.550061e-02
#> [81,] 0.000000e+00 0.000000e+00 3.971097e-05 5.180817e-03 1.553029e-01
#> [82,] 0.000000e+00 0.000000e+00 4.391715e-03 1.020278e-01 5.076801e-01
#> [83,] 0.000000e+00 0.000000e+00 5.579105e-02 3.965002e-01 4.989059e-01
#> [84,] 0.000000e+00 0.000000e+00 1.507593e-01 5.571796e-01 2.904942e-01
#> [85,] 0.000000e+00 0.000000e+00 1.137039e-01 5.175645e-01 3.612632e-01
#> [86,] 0.000000e+00 0.000000e+00 1.507593e-01 5.571796e-01 2.904942e-01
#> [87,] 9.280310e-05 2.063618e-01 6.760552e-01 1.174901e-01 0.000000e+00
#> [88,] 1.026328e-02 3.766506e-01 5.732667e-01 3.981937e-02 0.000000e+00
#> [89,] 2.767021e-01 5.721805e-01 1.509221e-01 0.000000e+00 0.000000e+00
#> [90,] 4.193528e-01 5.015933e-02 1.260636e-03 0.000000e+00 0.000000e+00
#> [91,] 7.226466e-02 5.489224e-01 3.739203e-01 4.892581e-03 0.000000e+00
#> [92,] 0.000000e+00 8.025999e-04 3.149684e-01 5.721754e-01 1.120535e-01
#> [93,] 0.000000e+00 0.000000e+00 9.554871e-02 4.893372e-01 4.011525e-01
#> [94,] 0.000000e+00 0.000000e+00 3.865307e-03 9.454069e-02 4.973930e-01
#> [95,] 0.000000e+00 1.587675e-03 3.417668e-01 5.610958e-01 9.554978e-02
#> [96,] 5.026841e-01 8.793074e-02 3.151131e-03 0.000000e+00 0.000000e+00
#> [97,] 2.880496e-01 5.671272e-01 1.444549e-01 0.000000e+00 0.000000e+00
#> [98,] 0.000000e+00 1.678874e-01 6.842398e-01 1.478727e-01 0.000000e+00
#> [99,] 0.000000e+00 2.302982e-04 2.802895e-01 5.826076e-01 1.368727e-01
#> [100,] 0.000000e+00 6.146260e-04 3.061697e-01 5.752658e-01 1.179499e-01
#> [101,] 3.647533e-03 3.119726e-01 6.222260e-01 6.215390e-02 0.000000e+00
#> [102,] 0.000000e+00 1.678874e-01 6.842398e-01 1.478727e-01 0.000000e+00
#> [103,] 0.000000e+00 0.000000e+00 2.706191e-02 2.815839e-01 5.652888e-01
#> [104,] 0.000000e+00 3.811420e-03 3.872816e-01 5.371191e-01 7.178796e-02
#> [105,] 0.000000e+00 0.000000e+00 1.743216e-02 2.237505e-01 5.742036e-01
#> [106,] 0.000000e+00 2.076108e-02 5.208340e-01 4.337817e-01 2.462327e-02
#> [107,] 0.000000e+00 0.000000e+00 4.214159e-02 3.494609e-01 5.331946e-01
#> [108,] 0.000000e+00 1.932979e-03 3.508064e-01 5.568285e-01 9.043216e-02
#> [109,] 0.000000e+00 0.000000e+00 1.482204e-02 2.049240e-01 5.727078e-01
#> [110,] 4.057288e-01 4.956100e-01 8.963748e-02 0.000000e+00 0.000000e+00
#> [111,] 0.000000e+00 0.000000e+00 1.560800e-03 5.439600e-02 4.177710e-01
#> [112,] 0.000000e+00 7.500861e-03 4.329770e-01 5.071887e-01 5.233342e-02
#> [113,] 1.856411e-01 5.964994e-01 2.178085e-01 5.096137e-05 0.000000e+00
#> [114,] 2.211758e-02 4.391368e-01 5.151445e-01 2.360110e-02 0.000000e+00
#> [115,] 0.000000e+00 5.302325e-05 2.553547e-01 5.868741e-01 1.577182e-01
#> [116,] 4.193528e-01 5.015933e-02 1.260636e-03 0.000000e+00 0.000000e+00
#> [117,] 5.828887e-01 2.726410e-01 2.327078e-02 0.000000e+00 0.000000e+00
#> [118,] 0.000000e+00 0.000000e+00 1.248640e-02 1.864500e-01 5.687605e-01
#> [119,] 0.000000e+00 0.000000e+00 2.706191e-02 2.815839e-01 5.652888e-01
#> [120,] 0.000000e+00 0.000000e+00 1.089669e-04 9.999143e-03 2.094762e-01
#> [121,] 0.000000e+00 0.000000e+00 9.133395e-02 4.817402e-01 4.108990e-01
#> [122,] 1.282910e-03 2.664254e-01 6.498978e-01 8.239386e-02 0.000000e+00
#> [123,] 9.033083e-03 3.674611e-01 5.808930e-01 4.261273e-02 0.000000e+00
#> [124,] 4.619712e-01 4.485047e-01 6.839641e-02 0.000000e+00 0.000000e+00
#> [125,] 0.000000e+00 7.682824e-02 6.493295e-01 2.714899e-01 2.352348e-03
#> [126,] 3.822371e-01 5.126104e-01 9.923376e-02 0.000000e+00 0.000000e+00
#> [127,] 0.000000e+00 6.466863e-02 6.340843e-01 2.973079e-01 3.939149e-03
#> [128,] 3.703874e-01 5.206568e-01 1.042786e-01 0.000000e+00 0.000000e+00
#> [129,] 0.000000e+00 0.000000e+00 3.737564e-02 3.301973e-01 5.444489e-01
#> [130,] 0.000000e+00 0.000000e+00 3.176877e-07 2.135697e-04 3.339670e-02
#> [131,] 0.000000e+00 2.076108e-02 5.208340e-01 4.337817e-01 2.462327e-02
#> [132,] 3.466168e-01 5.357678e-01 1.148755e-01 0.000000e+00 0.000000e+00
#> [133,] 5.026042e-01 4.070622e-01 5.404978e-02 0.000000e+00 0.000000e+00
#> [134,] 0.000000e+00 0.000000e+00 4.963871e-03 1.097171e-01 5.171583e-01
#> [135,] 0.000000e+00 0.000000e+00 4.963871e-03 1.097171e-01 5.171583e-01
#> [136,] 3.585049e-01 5.283808e-01 1.094916e-01 0.000000e+00 0.000000e+00
#> [137,] 0.000000e+00 0.000000e+00 1.287347e-01 5.362001e-01 3.308551e-01
#> [138,] 9.280310e-02 5.691902e-01 3.353475e-01 2.659226e-03 0.000000e+00
#> [139,] 4.385433e-01 5.702559e-02 1.550527e-03 0.000000e+00 0.000000e+00
#> [140,] 5.857552e-01 2.613012e-01 2.143449e-02 0.000000e+00 0.000000e+00
#> [141,] 1.303817e-01 5.898571e-01 2.789898e-01 7.713897e-04 0.000000e+00
#> [142,] 0.000000e+00 0.000000e+00 6.862055e-02 4.323526e-01 4.662240e-01
#> [143,] 0.000000e+00 0.000000e+00 1.137039e-01 5.175645e-01 3.612632e-01
#> [144,] 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
#> [145,] 1.282910e-03 2.664254e-01 6.498978e-01 8.239386e-02 0.000000e+00
#> [146,] 0.000000e+00 0.000000e+00 3.176877e-07 2.135697e-04 3.339670e-02
#> [147,] 0.000000e+00 4.737604e-02 6.038748e-01 3.408099e-01 7.939174e-03
#> [148,] 5.828887e-01 2.726410e-01 2.327078e-02 0.000000e+00 0.000000e+00
#> [149,] 0.000000e+00 0.000000e+00 1.560800e-03 5.439600e-02 4.177710e-01
#> [150,] 5.705463e-01 1.529789e-01 8.074687e-03 0.000000e+00 0.000000e+00
#> [151,] 0.000000e+00 1.109237e-01 6.750740e-01 2.135836e-01 4.186674e-04
#> [152,] 0.000000e+00 1.901984e-02 5.124315e-01 4.417540e-01 2.679471e-02
#> [153,] 0.000000e+00 6.092068e-02 6.285007e-01 3.059841e-01 4.594430e-03
#> [154,] 0.000000e+00 0.000000e+00 1.751628e-01 5.731810e-01 2.513009e-01
#> [155,] 5.500477e-02 5.242462e-01 4.126302e-01 8.118802e-03 0.000000e+00
#> [156,] 9.280310e-05 2.063618e-01 6.760552e-01 1.174901e-01 0.000000e+00
#> [157,] 0.000000e+00 0.000000e+00 3.971097e-05 5.180817e-03 1.553029e-01
#> [158,] 0.000000e+00 0.000000e+00 2.706191e-02 2.815839e-01 5.652888e-01
#> [159,] 0.000000e+00 1.587675e-03 3.417668e-01 5.610958e-01 9.554978e-02
#> [160,] 4.725748e-01 4.384129e-01 6.459750e-02 0.000000e+00 0.000000e+00
#> [161,] 0.000000e+00 2.661561e-02 5.453185e-01 4.092471e-01 1.881878e-02
#> [162,] 1.769406e-01 5.968282e-01 2.261408e-01 9.039903e-05 0.000000e+00
#> [163,] 0.000000e+00 1.302706e-02 4.778341e-01 4.723834e-01 3.675544e-02
#> [164,] 3.291505e-01 2.657865e-02 4.594155e-04 0.000000e+00 0.000000e+00
#> [165,] 2.546517e-04 2.229072e-01 6.702278e-01 1.066103e-01 0.000000e+00
#> [166,] 0.000000e+00 1.438536e-02 4.866153e-01 4.649323e-01 3.406712e-02
#> [167,] 0.000000e+00 0.000000e+00 2.315944e-04 1.627254e-02 2.593039e-01
#> [168,] 1.169052e-01 5.843780e-01 2.974807e-01 1.236142e-03 0.000000e+00
#> [169,] 0.000000e+00 4.420179e-03 3.964388e-01 5.315748e-01 6.756626e-02
#> [170,] 0.000000e+00 1.028925e-05 2.393654e-01 5.878950e-01 1.727293e-01
#> [171,] 8.734554e-02 5.645733e-01 3.449467e-01 3.134470e-03 0.000000e+00
#> [172,] 2.211758e-02 4.391368e-01 5.151445e-01 2.360110e-02 0.000000e+00
#> [173,] 0.000000e+00 0.000000e+00 4.391715e-03 1.020278e-01 5.076801e-01
#> [174,] 5.939398e-06 1.827295e-01 6.821048e-01 1.351598e-01 0.000000e+00
#> [175,] 5.702677e-01 3.067995e-01 2.940259e-02 0.000000e+00 0.000000e+00
#> [176,] 0.000000e+00 9.528872e-02 6.658395e-01 2.378794e-01 9.923968e-04
#> [177,] 0.000000e+00 0.000000e+00 3.865307e-03 9.454069e-02 4.973930e-01
#> [178,] 0.000000e+00 0.000000e+00 7.571388e-02 4.494767e-01 4.484920e-01
#> [179,] 0.000000e+00 1.286156e-03 3.327751e-01 5.650818e-01 1.008569e-01
#> [180,] 2.004547e-05 1.904348e-01 6.804590e-01 1.290861e-01 0.000000e+00
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#> [1171,] NA
#> [1172,] NA
#> [1173,] NA
#> [1174,] NA
#> [1175,] NA
#> [1176,] NA
#> [1177,] NA
#> [1178,] NA
#> [1179,] NA
#> [1180,] NA
#> [1181,] NA
#> [1182,] NA
#> [1183,] NA
#> [1184,] NA
#> [1185,] NA
#> [1186,] NA
#> [1187,] NA
#> [1188,] NA
#> [1189,] NA
#> [1190,] NA
#> [1191,] NA
#> [1192,] NA
#> [1193,] NA
#> [1194,] NA
#> [1195,] NA
#> [1196,] NA
#> [1197,] NA
#> [1198,] NA
#> [1199,] NA
#> [1200,] NA