# kernels.gen: Generate both training and test kernel matrices In RMKL: Multiple Kernel Learning for Classification or Regression Problems

## Description

This function creates gramm matrix for traning set baed upon several types of kernel and specified hyper paremeters. This function is essentially a wrappper functions that combines gramm and grammpred. Additionally this function divides each kernel matrix by it's trace, which is a common transformation used in MKL.

## Usage

 `1` ```kernels.gen(data, train.samples, kernels, degree, scale, sigma) ```

## Arguments

 `data` List of data matrices `train.samples` Vector of indices that will be used as training samples `kernels` Character vector of kernel types `degree` Degree of polynomial kernel matrix `scale` Leading coefficient on the polynomial kernel `sigma` Hyperparameter for the radial basis kernel

## Value

K.train Gramm matricesfor training data

K.test Gramm matrices for test data

## Examples

 ``` 1 2 3 4 5 6 7 8 9 10 11``` ```library(kernlab) data(benchmark.data) example.data=benchmark.data[[1]] #Dividing the samples into a train set and test set. training.samples=sample(1:dim(example.data)[1],floor(0.7*dim(example.data)[1]),replace=FALSE) #Specifying the type and hyperparameters for each kernel. kernels=c('linear',rep('radial',3)) degree=rep(0,4) scale=rep(0,4) sigma=c(0,2^seq(-3:0)) kernels.gen(example.data[,1:2], training.samples, kernels, degree, scale, sigma) ```

### Example output

```\$K.train
\$K.train[[1]]
An object of class "kernelMatrix"
[,1]          [,2]          [,3]          [,4]          [,5]
[1,]  0.0088548320  2.647693e-03  0.0099975836  5.076908e-04  0.0095157142
[2,]  0.0026476933  8.512235e-04  0.0029602406  2.389837e-04  0.0025746008
[3,]  0.0099975836  2.960241e-03  0.0113020828  5.305273e-04  0.0108762932
[4,]  0.0005076908  2.389837e-04  0.0005305273  1.567686e-04  0.0001491766
[5,]  0.0095157142  2.574601e-03  0.0108762932  1.491766e-04  0.0114568266
[6,]  0.0023427871  6.777219e-04  0.0026562949  1.009399e-04  0.0026213028
[7,]  0.0009387713  3.145629e-05  0.0011819561 -3.111611e-04  0.0021421765
[8,]  0.0100138483  2.883258e-03  0.0113605191  4.116078e-04  0.0112659321
[9,]  0.0097115639  2.847506e-03  0.0109924742  4.742808e-04  0.0106926597
[10,]  0.0089928772  2.465531e-03  0.0102628411  1.884118e-04  0.0106800531
[11,]  0.0012155559  4.443347e-04  0.0013328339  1.881160e-04  0.0009385586
[12,]  0.0108465564  3.097985e-03  0.0123174661  4.091801e-04  0.0123165785
[13,]  0.0020078610  5.062658e-04  0.0023130588 -2.268537e-05  0.0025856279
[14,]  0.0088888513  2.507673e-03  0.0101095282  2.897066e-04  0.0102352059
[15,]  0.0101482493  2.756083e-03  0.0115942064  1.742363e-04  0.0121713694
[16,]  0.0023580864  7.432492e-04  0.0026437259  1.910733e-04  0.0023605889
[17,]  0.0114852426  3.127688e-03  0.0131175368  2.096402e-04  0.0137362452
[18,]  0.0014848248  3.137405e-04  0.0017402130 -1.055832e-04  0.0021878478
[19,]  0.0023564960  4.102867e-04  0.0028047178 -2.958965e-04  0.0038707178
[20,]  0.0089602367  2.501308e-03  0.0102036934  2.532214e-04  0.0104379208
[21,]  0.0108759643  2.882835e-03  0.0124603133  8.293329e-05  0.0133664666
[22,]  0.0021330490  6.599980e-04  0.0023974618  1.547961e-04  0.0021913381
[23,]  0.0120270133  3.751891e-03  0.0135029259  9.175377e-04  0.0122167671
[24,]  0.0120356497  3.511597e-03  0.0136315900  5.623771e-04  0.0133304175
[25,]  0.0119823584  3.253092e-03  0.0136901854  2.041120e-04  0.0143761330
[26,]  0.0080133111  2.062422e-03  0.0092108168 -2.913584e-05  0.0101285015
[27,]  0.0018213039  5.310513e-04  0.0020629792  8.459858e-05  0.0020187993
[28,]  0.0105132743  3.062050e-03  0.0119099752  4.833793e-04  0.0116686856
[29,]  0.0100211559  2.910294e-03  0.0113566026  4.484174e-04  0.0111607862
[30,]  0.0022142320  7.200923e-04  0.0024715843  2.119033e-04  0.0021157063
[31,]  0.0106168121  2.992412e-03  0.0120761276  3.420065e-04  0.0122373698
[32,]  0.0025583403  5.323677e-04  0.0030023889 -1.939332e-04  0.0038069492
[33,]  0.0017032994  1.213497e-04  0.0021130623 -4.704460e-04  0.0035944831
[34,]  0.0029780813  9.140525e-04  0.0033508731  2.052673e-04  0.0030931627
[35,]  0.0115425605  3.188340e-03  0.0131609472  2.766461e-04  0.0135999814
[36,]  0.0019295991  6.895947e-04  0.0021234806  2.755534e-04  0.0015615112
[37,]  0.0091164614  2.682274e-03  0.0103143483  4.587732e-04  0.0099953467
[38,]  0.0014056556  3.605374e-04  0.0016163245 -6.930303e-06  0.0017823416
[39,]  0.0102661029  2.788014e-03  0.0117288893  1.761487e-04  0.0123130628
[40,]  0.0093049925  2.621133e-03  0.0105847453  2.975013e-04  0.0107322894
[41,]  0.0018764818  6.101384e-04  0.0020946345  1.794136e-04  0.0017935028
[42,]  0.0106238369  3.053540e-03  0.0120551589  4.288463e-04  0.0119765177
[43,]  0.0083209752  2.356518e-03  0.0094592359  2.844527e-04  0.0095401591
[44,]  0.0119270181  3.333618e-03  0.0135801752  3.430897e-04  0.0138752612
[45,]  0.0007080967  1.674347e-04  0.0008211661 -2.426361e-05  0.0009623536
[46,]  0.0013555717  4.680589e-04  0.0014998017  1.695774e-04  0.0011715176
[47,]  0.0049690716  1.472267e-03  0.0056169796  2.650731e-04  0.0054015085
[48,]  0.0132142566  3.794762e-03  0.0149962072  5.285427e-04  0.0149118837
[49,]  0.0026711216  6.000633e-04  0.0031130917 -1.377188e-04  0.0037736717
[50,]  0.0089585617  2.651959e-03  0.0101277971  4.744661e-04  0.0097488214
[51,]  0.0100839737  2.775491e-03  0.0115027239  2.271147e-04  0.0119266574
[52,]  0.0077579209  2.191937e-03  0.0088216673  2.577030e-04  0.0089179004
[53,]  0.0027407040  9.589398e-04  0.0030261328  3.613258e-04  0.0023112203
[54,]  0.0094497489  2.670207e-03  0.0107453486  3.142785e-04  0.0108615254
[55,]  0.0106320080  3.166467e-03  0.0120102909  5.911024e-04  0.0114829215
[56,]  0.0120862063  3.328216e-03  0.0137858569  2.746047e-04  0.0142873288
[57,]  0.0104928988  2.722475e-03  0.0120502450 -6.125266e-06  0.0131631536
[58,]  0.0036571596  1.192766e-03  0.0040805450  3.549971e-04  0.0034788878
[59,]  0.0012621469  4.302821e-04  0.0013991386  1.498091e-04  0.0011158710
[60,]  0.0033682632  1.021610e-03  0.0037958704  2.142963e-04  0.0035538952
[61,]  0.0025885254  8.659385e-04  0.0028775703  2.830464e-04  0.0023636612
[62,]  0.0106388590  3.008919e-03  0.0120961652  3.577900e-04  0.0122159770
[63,]  0.0104560753  2.834256e-03  0.0119485496  1.715744e-04  0.0125652392
[64,]  0.0024788019  8.205660e-04  0.0027598379  2.583574e-04  0.0023028773
[65,]  0.0092135942  2.623105e-03  0.0104672058  3.351679e-04  0.0105008366
[66,]  0.0018677248  3.407321e-04  0.0022153681 -2.117603e-04  0.0029971922
[67,]  0.0009070381  3.180947e-04  0.0010011422  1.206542e-04  0.0007615678
[68,]  0.0016054195  2.002542e-04  0.0019495892 -3.176563e-04  0.0029974350
[69,]  0.0006581009  3.007798e-04  0.0006921123  1.900254e-04  0.0002343229
[70,]  0.0099531205  2.769153e-03  0.0113389301  2.676261e-04  0.0116369471
[71,]  0.0126079001  3.603518e-03  0.0143164627  4.792273e-04  0.0143054517
[72,]  0.0016630899  4.799160e-04  0.0018862210  6.992252e-05  0.0018661810
[73,]  0.0141868923  4.079077e-03  0.0160975545  5.747704e-04  0.0159867300
[74,] -0.0002044032 -6.387629e-05 -0.0002294322 -1.575734e-05 -0.0002071205
[75,]  0.0099458732  2.762273e-03  0.0113330547  2.603099e-04  0.0116505864
[76,]  0.0011787146  3.062118e-04  0.0013534703 -1.257646e-07  0.0014769303
[77,]  0.0014516644  4.162727e-04  0.0016477181  5.717859e-05  0.0016409067
[78,]  0.0032168958  1.018373e-03  0.0036043934  2.671553e-04  0.0032001461
[79,]  0.0022964416  6.375778e-04  0.0026168384  5.979011e-05  0.0026910242
[80,]  0.0127308393  3.771193e-03  0.0143911711  6.779818e-04  0.0138422886
[81,]  0.0020049457  4.552276e-04  0.0023343291 -9.631408e-05  0.0028106052
[82,]  0.0017444966  6.075072e-04  0.0019275819  2.257841e-04  0.0014841808
[83,]  0.0027596136  7.942283e-04  0.0031308947  1.129343e-04  0.0031062040
[84,]  0.0037221991  1.157376e-03  0.0041808268  2.784247e-04  0.0037981309
[85,]  0.0104960833  2.866252e-03  0.0119839124  2.032043e-04  0.0125171403
[86,]  0.0087505926  2.611399e-03  0.0098824012  4.942085e-04  0.0094270016
[87,]  0.0105583652  2.963546e-03  0.0120157145  3.219764e-04  0.0122263520
[88,]  0.0116965513  3.113881e-03  0.0133938108  1.090140e-04  0.0143134061
[89,]  0.0018879350  5.019196e-04  0.0021622270  1.658476e-05  0.0023134601
[90,]  0.0017840211  3.746695e-04  0.0020919922 -1.302128e-04  0.0026391208
[91,]  0.0002278120 -5.193640e-05  0.0003159916 -1.627410e-04  0.0007907108
[92,]  0.0114112286  3.108953e-03  0.0130323082  2.103700e-04  0.0136412639
[93,]  0.0039519683  9.920277e-04  0.0045548417 -5.113610e-05  0.0051092959
[94,]  0.0106563942  3.200433e-03  0.0120247642  6.315613e-04  0.0113878379
[95,]  0.0007451732  2.290576e-04  0.0008382844  5.186569e-05  0.0007724042
[96,]  0.0035595025  1.371286e-03  0.0038685833  6.535753e-04  0.0024294214
[97,]  0.0099258846  2.697076e-03  0.0113394812  1.724441e-04  0.0118983852
[98,]  0.0031452601  1.099711e-03  0.0034732020  4.135219e-04  0.0026559179
[99,]  0.0110553047  3.232314e-03  0.0125179465  5.264509e-04  0.0122139261
[100,]  0.0032130380  9.204659e-04  0.0036474090  1.252522e-04  0.0036359458
[101,]  0.0024577558  7.945649e-04  0.0027457250  2.282911e-04  0.0023698744
[102,]  0.0025228404  7.428905e-04  0.0028540373  1.278553e-04  0.0027632733
[103,]  0.0015886165  4.560569e-04  0.0018029154  6.332317e-05  0.0017933826
[104,]  0.0088464180  2.497907e-03  0.0100601882  2.915523e-04  0.0101763198
[105,]  0.0010804549  2.080403e-04  0.0012762102 -1.064936e-04  0.0016841331
[106,]  0.0030363369  6.215518e-04  0.0035683852 -2.452248e-04  0.0045649896
[107,]  0.0032956993  1.293192e-03  0.0035703507  6.396007e-04  0.0021423567
[108,]  0.0106367021  2.923543e-03  0.0121352147  2.335902e-04  0.0125989359
[109,]  0.0092306586  2.501825e-03  0.0105483500  1.510774e-04  0.0110938438
[110,]  0.0099202280  2.749200e-03  0.0113067461  2.509250e-04  0.0116476032
[111,]  0.0084878351  2.290408e-03  0.0097044257  1.241497e-04  0.0102469464
[112,]  0.0025484762  8.460510e-04  0.0028362265  2.691638e-04  0.0023566006
[113,]  0.0005577274 -1.882948e-04  0.0008035444 -4.879584e-04  0.0022138388
[114,]  0.0017459741  5.997665e-04  0.0019332563  2.138868e-04  0.0015229750
[115,]  0.0126859074  3.587400e-03  0.0144238489  4.259406e-04  0.0145686331
[116,]  0.0008036727 -4.870582e-06  0.0010274303 -3.129484e-04  0.0019784924
[117,]  0.0036022303  1.286615e-03  0.0039645362  5.133274e-04  0.0029184381
[118,]  0.0107033407  2.819683e-03  0.0122710597  5.614410e-05  0.0132334112
[119,]  0.0124953884  3.666650e-03  0.0141420500  6.144876e-04  0.0137445064
[120,]  0.0113176546  3.344084e-03  0.0127978376  5.902921e-04  0.0123443264
[121,]  0.0021872007  6.515108e-04  0.0024706851  1.217618e-04  0.0023617490
[122,]  0.0114771571  3.391348e-03  0.0129781343  5.988096e-04  0.0125176818
[123,]  0.0015265213  1.709047e-04  0.0018633281 -3.306118e-04  0.0029388306
[124,]  0.0027303378  7.936074e-04  0.0030938588  1.231652e-04  0.0030377624
[125,]  0.0104740818  2.900243e-03  0.0119392087  2.613503e-04  0.0123090266
[126,]  0.0116558858  3.199939e-03  0.0132998094  2.505077e-04  0.0138231046
[127,]  0.0122287758  3.488250e-03  0.0138893442  4.546988e-04  0.0139066994
[128,]  0.0008193816  2.695414e-04  0.0009131125  8.291024e-05  0.0007689644
[129,]  0.0020830560  7.883612e-04  0.0022708508  3.617887e-04  0.0014859673
[130,]  0.0088843994  2.488112e-03  0.0101134271  2.627567e-04  0.0103133130
[131,]  0.0026279992  9.691472e-04  0.0028773857  4.191598e-04  0.0019904543
[132,]  0.0112969485  3.418927e-03  0.0127347843  7.077684e-04  0.0119536053
[133,]  0.0100697309  3.023801e-03  0.0113629838  5.961482e-04  0.0107629061
[134,]  0.0100030527  2.782258e-03  0.0113961999  2.678163e-04  0.0116989051
[135,]  0.0018290825  1.431100e-04  0.0022628387 -4.864448e-04  0.0038017265
[136,]  0.0099929054  3.084367e-03  0.0112353429  7.140731e-04  0.0103004933
[137,]  0.0100847877  2.700274e-03  0.0115405886  1.166608e-04  0.0122706543
[138,]  0.0011468107  1.741480e-04  0.0013774376 -1.813738e-04  0.0019997700
[139,]  0.0113584142  3.288679e-03  0.0128769514  4.936489e-04  0.0126954776
[140,]  0.0009061226  1.632969e-04  0.0010757643 -1.056762e-04  0.0014632139
[,6]          [,7]          [,8]          [,9]         [,10]
[1,]  2.342787e-03  9.387713e-04  0.0100138483  0.0097115639  0.0089928772
[2,]  6.777219e-04  3.145629e-05  0.0028832576  0.0028475059  0.0024655313
[3,]  2.656295e-03  1.181956e-03  0.0113605191  0.0109924742  0.0102628411
[4,]  1.009399e-04 -3.111611e-04  0.0004116078  0.0004742808  0.0001884118
[5,]  2.621303e-03  2.142177e-03  0.0112659321  0.0106926597  0.0106800531
[6,]  6.285781e-04  3.438224e-04  0.0026919399  0.0025910409  0.0024648729
[7,]  3.438224e-04  1.143034e-03  0.0015263422  0.0012655586  0.0018888667
[8,]  2.691940e-03  1.526342e-03  0.0115315066  0.0110877955  0.0105865409
[9,]  2.591041e-03  1.265559e-03  0.0110877955  0.0107045423  0.0100744920
[10,]  2.464873e-03  1.888867e-03  0.0105865409  0.0100744920  0.0099716745
[11,]  2.906406e-04 -2.097031e-04  0.0012238875  0.0012566062  0.0009309892
[12,]  2.925375e-03  1.758065e-03  0.0125370855  0.0120335055  0.0115608192
[13,]  5.672710e-04  6.068617e-04  0.0024461240  0.0022912174  0.0023923605
[14,]  2.409301e-03  1.571180e-03  0.0103323382  0.0098910597  0.0095911209
[15,]  2.791588e-03  2.241277e-03  0.0119955284  0.0113936394  0.0113511719
[16,]  6.092851e-04  9.025745e-05  0.0025956021  0.0025501175  0.0022516466
[17,]  3.156113e-03  2.500965e-03  0.0135600439  0.0128866601  0.0128147391
[18,]  4.427236e-04  7.026811e-04  0.0019219910  0.0017517812  0.0019967779
[19,]  7.361846e-04  1.482094e-03  0.0032136904  0.0028631339  0.0034979044
[20,]  2.438800e-03  1.694762e-03  0.0104647307  0.0099955850  0.0097676212
[21,]  3.018911e-03  2.698756e-03  0.0129878620  0.0122777629  0.0124311795
[22,]  5.558579e-04  1.332287e-04  0.0023708696  0.0023184185  0.0020830104
[23,]  3.122459e-03  6.233038e-04  0.0133109907  0.0130432837  0.0116302232
[24,]  3.217749e-03  1.641053e-03  0.0137735733  0.0132826824  0.0125505422
[25,]  3.296538e-03  2.650962e-03  0.0141655545  0.0134538735  0.0134068246
[26,]  2.247905e-03  2.246419e-03  0.0096842308  0.0091044828  0.0093904660
[27,]  4.870600e-04  2.497733e-04  0.0020849376  0.0020103376  0.0019005110
[28,]  2.812796e-03  1.455960e-03  0.0120413816  0.0116076550  0.0109831926
[29,]  2.684357e-03  1.423075e-03  0.0114934387  0.0110722840  0.0105006930
[30,]  5.636206e-04 -8.128505e-06  0.0023958968  0.0023735462  0.0020310227
[31,]  2.878712e-03  1.888099e-03  0.0123460234  0.0118164438  0.0114658987
[32,]  7.659506e-04  1.245063e-03  0.0033268703  0.0030260710  0.0034712237
[33,]  5.992154e-04  1.804813e-03  0.0026495481  0.0022353709  0.0031859089
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[4,]  1.217618e-04  0.0005988096 -3.306118e-04  1.231652e-04  0.0002613503
[5,]  2.361749e-03  0.0125176818  2.938831e-03  3.037762e-03  0.0123090266
[6,]  5.796357e-04  0.0030520840  5.132264e-04  7.311138e-04  0.0028599004
[7,]  2.422926e-04  0.0013861312  1.357302e-03  3.848949e-04  0.0020801698
[8,]  2.478121e-03  0.0130548249  2.258692e-03  3.130211e-03  0.0122768823
[9,]  2.401173e-03  0.0126258996  1.944536e-03  3.016085e-03  0.0117067566
[10,]  2.230631e-03  0.0118078956  2.622002e-03  2.858452e-03  0.0115066914
[11,]  2.968725e-04  0.0015205925 -1.783223e-04  3.438468e-04  0.0011232043
[12,]  2.685236e-03  0.0141574147  2.566575e-03  3.400090e-03  0.0133951635
[13,]  4.998851e-04  0.0026664208  7.975091e-04  6.551438e-04  0.0027411670
[14,]  2.201877e-03  0.0116232966  2.252754e-03  2.798332e-03  0.0110986661
[15,]  2.518309e-03  0.0133427394  3.084582e-03  3.235731e-03  0.0130870059
[16,]  5.808690e-04  0.0030305010  2.235166e-04  7.124941e-04  0.0026408529
[17,]  2.849731e-03  0.0150948186  3.450189e-03  3.658772e-03  0.0147780937
[18,]  3.722009e-04  0.0020130385  8.806394e-04  5.077024e-04  0.0022630605
[19,]  5.943628e-04  0.0032543420  1.817951e-03  8.393043e-04  0.0039325581
[20,]  2.220667e-03  0.0117346500  2.397969e-03  2.830953e-03  0.0112909173
[21,]  2.701853e-03  0.0143476862  3.645747e-03  3.494899e-03  0.0143012331
[22,]  5.259500e-04  0.0027496650  2.612824e-04  6.492167e-04  0.0024367680
[23,]  2.964248e-03  0.0154829941  1.326700e-03  3.648856e-03  0.0136206547
[24,]  2.976525e-03  0.0156592055  2.493094e-03  3.744510e-03  0.0145758111
[25,]  2.973493e-03  0.0157549427  3.647351e-03  3.820952e-03  0.0154565302
[26,]  1.993275e-03  0.0106131139  2.981724e-03  2.598604e-03  0.0107767771
[27,]  4.504393e-04  0.0023698749  3.789187e-04  5.667725e-04  0.0022070337
[28,]  2.600252e-03  0.0136821393  2.203501e-03  3.272927e-03  0.0127530260
[29,]  2.478888e-03  0.0130474121  2.140759e-03  3.122949e-03  0.0121888399
[30,]  5.445066e-04  0.0028305529  1.034760e-04  6.605346e-04  0.0023934354
[31,]  2.630028e-03  0.0138846881  2.703842e-03  3.343368e-03  0.0132668824
[32,]  6.416415e-04  0.0034740222  1.556685e-03  8.779081e-04  0.0039311545
[33,]  4.369293e-04  0.0024713147  2.154393e-03  6.737409e-04  0.0035241705
[34,]  7.346208e-04  0.0038440125  4.003401e-04  9.092491e-04  0.0034309575
[35,]  2.862072e-03  0.0151395463  3.251365e-03  3.659785e-03  0.0146765968
[36,]  4.719196e-04  0.0024245227 -2.075231e-04  5.518606e-04  0.0018442819
[37,]  2.253648e-03  0.0118459239  1.780980e-03  2.827722e-03  0.0109533784
```