Fit of the multinomial log-linear model obtained from the LOGICOIL training dataset.

Description

A nnet object containing the results of fitting a muiltinomial log-linear model via neural network to the LOGICOIL training dataset. It is used to generate the LOGICOIL predictions.

Usage

data(LOGICOILfit)

Format

A nnet object

Source

DOI: 10.1093/bioinformatics/bts648

References

Thomas L. Vincent, Peter J. Green and Dek N. Woolfson. "LOGICOIL-multi-state prediction of coiled-coil oligomeric state", 29(1), pp69-76, Bioinformatics, (2013). DOI: 10.1093/bioinformatics/bts648 Venables, W. N. and Ripley, B. D. (2002) Modern Applied Statistics with S. Fourth edition. Springer.

Examples

data(LOGICOILfit)
names(LOGICOILfit)
LOGICOILfit$coefnames

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(LOGICOIL)
Loading required package: nnet
> png(filename="/home/ddbj/snapshot/RGM3/R_CC/result/LOGICOIL/LOGICOILfit.Rd_%03d_medium.png", width=480, height=480)
> ### Name: LOGICOILfit
> ### Title: Fit of the multinomial log-linear model obtained from the
> ###   LOGICOIL training dataset.
> ### Aliases: LOGICOILfit
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(LOGICOILfit)
> names(LOGICOILfit)
 [1] "n"             "nunits"        "nconn"         "conn"         
 [5] "nsunits"       "decay"         "entropy"       "softmax"      
 [9] "censored"      "value"         "wts"           "convergence"  
[13] "fitted.values" "residuals"     "lev"           "call"         
[17] "terms"         "weights"       "deviance"      "rank"         
[21] "lab"           "coefnames"     "vcoefnames"    "contrasts"    
[25] "xlevels"       "edf"           "AIC"          
> LOGICOILfit$coefnames
  [1] "(Intercept)"      "aminoC"           "aminoD"          
  [4] "aminoE"           "aminoF"           "aminoG"          
  [7] "aminoH"           "aminoI"           "aminoK"          
 [10] "aminoL"           "aminoM"           "aminoN"          
 [13] "aminoP"           "aminoQ"           "aminoR"          
 [16] "aminoS"           "aminoT"           "aminoV"          
 [19] "aminoW"           "aminoX"           "aminoY"          
 [22] "registerb"        "registerc"        "registerd"       
 [25] "registere"        "registerf"        "registerg"       
 [28] "abAE"             "abIR"             "abNL"            
 [31] "bcES"             "cdLT"             "cdQN"            
 [34] "deEL"             "deHD"             "deID"            
 [37] "deIK"             "deIL"             "deKD"            
 [40] "deLK"             "deLQ"             "deNT"            
 [43] "deSE"             "deTD"             "deTN"            
 [46] "deTT"             "efFG"             "efIT"            
 [49] "efQG"             "efTT"             "efYK"            
 [52] "fgKE"             "fgKN"             "fgLM"            
 [55] "fgQI"             "fgRH"             "fgRS"            
 [58] "fgSK"             "fgTN"             "fgTV"            
 [61] "gaEN"             "gaKV"             "gaNK"            
 [64] "gaRV"             "gaVA"             "gaVI"            
 [67] "gaYL"             "adAF"             "adAT"            
 [70] "adIL"             "adLI"             "adLK"            
 [73] "adLS"             "adNL"             "adRL"            
 [76] "adVL"             "beAE"             "beKE"            
 [79] "beQN"             "beRQ"             "cfSA"            
 [82] "dgEH"             "dgLE"             "eaIV"            
 [85] "eaYA"             "aeKI"             "aeKQ"            
 [88] "aeLE"             "aeLT"             "aeNR"            
 [91] "aeYF"             "bfAK"             "bfED"            
 [94] "bfIH"             "bfVT"             "cgDR"            
 [97] "cgEH"             "cgEI"             "cgHE"            
[100] "cgMA"             "cgQE"             "cgVT"            
[103] "daII"             "daIL"             "daIS"            
[106] "daKI"             "daLK"             "daLN"            
[109] "daLR"             "daLV"             "daNI"            
[112] "daVI"             "daYA"             "daYT"            
[115] "aminoC:registerb" "aminoD:registerb" "aminoE:registerb"
[118] "aminoF:registerb" "aminoG:registerb" "aminoH:registerb"
[121] "aminoI:registerb" "aminoK:registerb" "aminoL:registerb"
[124] "aminoM:registerb" "aminoN:registerb" "aminoP:registerb"
[127] "aminoQ:registerb" "aminoR:registerb" "aminoS:registerb"
[130] "aminoT:registerb" "aminoV:registerb" "aminoW:registerb"
[133] "aminoX:registerb" "aminoY:registerb" "aminoC:registerc"
[136] "aminoD:registerc" "aminoE:registerc" "aminoF:registerc"
[139] "aminoG:registerc" "aminoH:registerc" "aminoI:registerc"
[142] "aminoK:registerc" "aminoL:registerc" "aminoM:registerc"
[145] "aminoN:registerc" "aminoP:registerc" "aminoQ:registerc"
[148] "aminoR:registerc" "aminoS:registerc" "aminoT:registerc"
[151] "aminoV:registerc" "aminoW:registerc" "aminoX:registerc"
[154] "aminoY:registerc" "aminoC:registerd" "aminoD:registerd"
[157] "aminoE:registerd" "aminoF:registerd" "aminoG:registerd"
[160] "aminoH:registerd" "aminoI:registerd" "aminoK:registerd"
[163] "aminoL:registerd" "aminoM:registerd" "aminoN:registerd"
[166] "aminoP:registerd" "aminoQ:registerd" "aminoR:registerd"
[169] "aminoS:registerd" "aminoT:registerd" "aminoV:registerd"
[172] "aminoW:registerd" "aminoX:registerd" "aminoY:registerd"
[175] "aminoC:registere" "aminoD:registere" "aminoE:registere"
[178] "aminoF:registere" "aminoG:registere" "aminoH:registere"
[181] "aminoI:registere" "aminoK:registere" "aminoL:registere"
[184] "aminoM:registere" "aminoN:registere" "aminoP:registere"
[187] "aminoQ:registere" "aminoR:registere" "aminoS:registere"
[190] "aminoT:registere" "aminoV:registere" "aminoW:registere"
[193] "aminoX:registere" "aminoY:registere" "aminoC:registerf"
[196] "aminoD:registerf" "aminoE:registerf" "aminoF:registerf"
[199] "aminoG:registerf" "aminoH:registerf" "aminoI:registerf"
[202] "aminoK:registerf" "aminoL:registerf" "aminoM:registerf"
[205] "aminoN:registerf" "aminoP:registerf" "aminoQ:registerf"
[208] "aminoR:registerf" "aminoS:registerf" "aminoT:registerf"
[211] "aminoV:registerf" "aminoW:registerf" "aminoX:registerf"
[214] "aminoY:registerf" "aminoC:registerg" "aminoD:registerg"
[217] "aminoE:registerg" "aminoF:registerg" "aminoG:registerg"
[220] "aminoH:registerg" "aminoI:registerg" "aminoK:registerg"
[223] "aminoL:registerg" "aminoM:registerg" "aminoN:registerg"
[226] "aminoP:registerg" "aminoQ:registerg" "aminoR:registerg"
[229] "aminoS:registerg" "aminoT:registerg" "aminoV:registerg"
[232] "aminoW:registerg" "aminoX:registerg" "aminoY:registerg"
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>