Bootstrap-summary: 'print.Bootstrap' or 'summary.Bootstrap' a Bootstrap object

In kimod: A k-tables approach to integrate multiple Omics-Data

Description

Generic Print/Summary method for Bootstrap class output visualization.

Usage

## S4 method for signature 'Bootstrap'
summary(object)

Arguments

object

Bootstrap class object.

Value

according to the call

summary

console output text with increasing detail of Bootstrap object.

Author(s)

M L Zingaretti, J A Demey, J L Vicente-Villardon, J R Demey

Examples

{
 data(NCI60Selec)
 fit<-DiStatis(NCI60Selec,Scale=TRUE,Center=TRUE)
 A<-Bootstrap(fit)


 summary(A)

}

Example output

The calculations were performed using the scalar product between the tables
The Projection of all variables will be made when the number of variables is less than 50
Ratios Boot:
                       Dim1         Dim2
BR.BT_549       10.00400652 -1.299856072
BR.HS578T       17.17626118 -0.758136374
BR.MCF7        -11.07537592 -1.256096795
BR.MDA_MB_231    7.31267243 -1.318723124
BR.T47D         -1.93095242 -1.250209521
CNS.SF_268      12.54376410 -0.734647405
CNS.SF_295      12.22255959 -0.085744984
CNS.SF_539      16.53574049  0.235038751
CNS.SNB_19       9.41515414  0.822725512
CNS.SNB_75      17.75534848  1.007064251
CNS.U251        10.47089239  0.002643821
CO.COLO205     -14.90630207 -1.260815353
CO.HCC_2998    -12.56232351 -1.353421383
CO.HCT_116      -8.55844995 -1.326571158
CO.HCT_15      -12.85648521 -1.354232845
CO.HT29        -10.32717434 -1.289496014
CO.KM12        -13.42081730 -1.292260662
CO.SW_620      -17.42987110 -1.259438088
LC.A549          2.80358346 -1.260506100
LC.EKVX          6.97496322 -1.268319076
LC.HOP_62        7.68812887 -1.154365053
LC.HOP_92        9.10674994 -1.052220599
LC.NCI_H226     15.95644795 -1.142745293
LC.NCI_H23       2.45733484 -1.003160255
LC.NCI_H322M     1.16573706 -1.328192724
LC.NCI_H460     -3.44744065 -0.919292328
LC.NCI_H522     -3.20612673  0.061504492
LE.CCRF_CEM    -46.56342585  0.938687903
LE.HL_60       -41.89195596  0.901148244
LE.K_562       -35.28903649  1.065757099
LE.MOLT_4      -44.09844203  0.707973067
LE.RPMI_8226   -29.80469181  1.063578387
LE.SR          -19.55050338  0.289768848
ME.LOXIMVI       2.40801175  1.260013069
ME.M14           3.90592180  1.341783475
ME.MALME_3M      5.18878333  1.339149022
ME.MDA_MB_435    1.28518012  1.299583252
ME.MDA_N         1.61632395  1.341381082
ME.SK_MEL_2      2.23978399  1.343920950
ME.SK_MEL_28     4.74814838  1.306944336
ME.SK_MEL_5     -0.46142047  1.327681158
ME.UACC_257      1.43636468  1.317035650
ME.UACC_62       4.95175677  1.318355443
OV.IGROV1       -1.27588978 -1.210135293
OV.NCI_ADR_RES   2.24638845 -1.325311446
OV.OVCAR_3       0.06960039 -1.212105800
OV.OVCAR_4       3.67321799 -1.277401514
OV.OVCAR_5       3.54057623 -1.238119126
OV.OVCAR_8       3.82681674 -1.302545082
OV.SK_OV_3       6.86892739 -1.280641776
PR.DU_145        3.33880228 -1.309183686
PR.PC_3          1.83297163 -1.221956264
RE.786_0         9.63369400 -1.320349241
RE.A498         15.93137294 -1.275336134
RE.ACHN         10.47449163 -1.280351423
RE.CAKI_1       11.54447134 -1.312061439
RE.RXF_393      17.65525073 -1.279501434
RE.SN12C         7.71812159 -1.267008759
RE.TK_10         6.57836800 -1.376229798
RE.UO_31        14.22601575 -1.237560490
Comparision-Boot:
[[1]]
[[1]]$Pos
 [1] "BR.BT_549"     "BR.HS578T"     "BR.MDA_MB_231" "CNS.SF_268"   
 [5] "CNS.SF_295"    "CNS.SF_539"    "CNS.SNB_19"    "CNS.SNB_75"   
 [9] "CNS.U251"      "LC.EKVX"       "LC.HOP_62"     "LC.HOP_92"    
[13] "LC.NCI_H226"   "ME.M14"        "ME.MALME_3M"   "ME.SK_MEL_28" 
[17] "ME.UACC_62"    "OV.OVCAR_4"    "OV.OVCAR_5"    "OV.OVCAR_8"   
[21] "OV.SK_OV_3"    "PR.DU_145"     "RE.786_0"      "RE.A498"      
[25] "RE.ACHN"       "RE.CAKI_1"     "RE.RXF_393"    "RE.SN12C"     
[29] "RE.TK_10"      "RE.UO_31"     

[[1]]$Neg
 [1] "BR.MCF7"      "CO.COLO205"   "CO.HCC_2998"  "CO.HCT_116"   "CO.HCT_15"   
 [6] "CO.HT29"      "CO.KM12"      "CO.SW_620"    "LC.NCI_H460"  "LC.NCI_H522" 
[11] "LE.CCRF_CEM"  "LE.HL_60"     "LE.K_562"     "LE.MOLT_4"    "LE.RPMI_8226"
[16] "LE.SR"       


[[2]]
[[2]]$Pos
 [1] "BR.BT_549"     "BR.HS578T"     "BR.MDA_MB_231" "CNS.SF_268"   
 [5] "CNS.SF_295"    "CNS.SF_539"    "CNS.SNB_19"    "CNS.SNB_75"   
 [9] "CNS.U251"      "LC.EKVX"       "LC.HOP_62"     "LC.HOP_92"    
[13] "LC.NCI_H226"   "ME.M14"        "ME.MALME_3M"   "ME.SK_MEL_28" 
[17] "ME.UACC_62"    "OV.OVCAR_4"    "OV.OVCAR_5"    "OV.OVCAR_8"   
[21] "OV.SK_OV_3"    "PR.DU_145"     "RE.786_0"      "RE.A498"      
[25] "RE.ACHN"       "RE.CAKI_1"     "RE.RXF_393"    "RE.SN12C"     
[29] "RE.TK_10"      "RE.UO_31"     

[[2]]$Neg
 [1] "BR.MCF7"      "CO.COLO205"   "CO.HCC_2998"  "CO.HCT_116"   "CO.HCT_15"   
 [6] "CO.HT29"      "CO.KM12"      "CO.SW_620"    "LC.NCI_H460"  "LC.NCI_H522" 
[11] "LE.CCRF_CEM"  "LE.HL_60"     "LE.K_562"     "LE.MOLT_4"    "LE.RPMI_8226"
[16] "LE.SR"       


Stability-boot:
  1 - sum(SumNum)/sum(SumDenom)
1                     0.7475862
Representation Quality boot:
                    LI       LS
BR.MCF7       45.84510 65.63932
BR.MDA_MB_231 61.44379 76.58014
BR.HS578T     41.95389 58.71065
BR.BT_549     33.63515 58.40380
BR.T47D       14.51271 30.96041
CNS.SF_268    57.49912 72.45441
Inertia-Boot:
      Inertia-Mean Inertia-Sd        LI        LS
Dim 1    15.690423 0.20953270 15.277233 16.103612
Dim 2    11.590845 0.17417421 11.247381 11.934309
Dim 3     2.673144 0.08026175  2.514872  2.831417
Dim 4     2.557032 0.05768973  2.443271  2.670794
Dim 5     2.459339 0.04703081  2.366596  2.552082
Dim 6     2.385263 0.04787240  2.290860  2.479665

kimod documentation built on April 28, 2020, 9:21 p.m.