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PhyloPars results

Contents

Phylogenetic and phenotypic variability
Estimates for missing parameters
Cross-validation details

Please cite:  Bruggeman J, Heringa J and Brandt BW. (2009) PhyloPars: estimation of missing parameter values using phylogeny.
Nucleic Acids Research 37: W179-W184.

Phylogenetic and phenotypic variability

PhyloPars first estimates the parameters of the evolutionary model, i.e., the phylogenetic covariances and phenotypic variances. These are subsequently used to estimate missing feature values and to perform cross-validation.

feature phylogenetic s.d. Click for help phenotypic s.d. Click for help % variance explained by phylogeny Click for help cross-validation results
  error Click for help bias Click for help
maximum growth rate 0.2915ln /d 0.2853ln /d 85% 0.344ln /d -0.00227ln /d
diameter 0.2638ln µm 0.3586ln µm 65% 0.366ln µm -0.0125ln µm
surface area 0.6726ln µm² 1.094e-05ln µm² 100% 0.22ln µm² 0.00592ln µm²
phosphate affinity 0.9468ln /d/µM 0.9311ln /d/µM 78% 1.08ln /d/µM -0.053ln /d/µM
volume 0.913ln µm³ 0.588ln µm³ 92% 0.797ln µm³ -0.0336ln µm³
length 0.4895ln µm 0.2509ln µm 95% 0.455ln µm -0.0436ln µm


Phylogenetic correlations

  maximum growth rate diameter surface area phosphate affinity volume length
maximum growth rate 1          
diameter -0.412 1        
surface area -0.558 0.763 1      
phosphate affinity 0.193 0.516 0.034 1    
volume -0.604 0.742 0.979 -0.105 1  
length -0.186 0.745 0.686 0.700 0.539 1

Phylogenetic regression coefficients

Rows represent independent variables and columns dependent variables. A regression of feature i on j thus can be found at row j, column i.

  maximum growth rate diameter surface area phosphate affinity volume length
maximum growth rate 1 -0.372 -1.286 0.628 -1.893 -0.312
diameter -0.455 1 1.946 1.854 2.567 1.382
surface area -0.242 0.299 1 0.048 1.329 0.500
phosphate affinity 0.060 0.144 0.024 1 -0.102 0.362
volume -0.193 0.214 0.721 -0.109 1 0.289
length -0.111 0.401 0.943 1.354 1.005 1

Estimates for missing parameters

Using the optimal phylogenetic covariances and phenotypic variances listed above, PhyloPars estimates the values that were originally missing in the feature matrix. The table below lists all estimated values. If one or more observations have been provided for a value, this is denoted by a trailing asterisk symbol (*). You can click on an entry to view the contribution of individual observations to the estimate, and to retrieve details such as the standard deviation of the estimate. You can also download the complete table as a single text file.

  maximum growth rate (ln /d) diameter (ln µm) surface area (ln µm²) phosphate affinity (ln /d/µM) volume (ln µm³) length (ln µm)
root -0.04417  2.075  6.173  4.041  6.392  2.810 
Cyanophyta -0.003383  1.609  5.078  3.058  5.045  1.953 
Anabaena -0.03149  1.939  5.217  3.818  5.357  2.068 
Anabaena flos-aquae 0.1182* 1.901* 4.926  4.460  4.833* 2.200*
Anabaena spiroides -0.07382  1.966* 5.254  3.642  5.479* 1.977*
Anabaena planctonica -0.09857  1.982* 5.329  3.570  5.593* 1.984*
Anabaena cylindrica -0.03149  1.939  5.217  3.818  5.357  2.068 
Anabaena circinalis -0.07875  1.992  5.394  3.792  5.602* 2.138 
Aphanizomenon 0.02089  1.308  4.317  2.438  4.118  1.362 
Aphanizomenon flos-aquae 0.02696* 1.232* 4.127  2.283  3.886* 1.215*
Microcystis 0.09007* 0.7836  3.122  1.869  2.476  0.7016 
Microcystis aeruginosa -0.6553* 0.8326* 3.809  0.4121* 3.640* 0.4733*
Microcystis flos-aquae 0.001009  1.027* 3.645  2.506  3.094  1.173*
Microcystis elachista 0.3333  0.5135  2.213  2.007  1.216* 0.3377 
Tychonema -0.1287  1.655  5.239  2.979  5.282  1.992 
Tychonema bourrellyi -0.1600* 1.667  5.279  2.960  5.341  2.001 
Chroococcus -0.5354  1.626  6.463  0.1268  7.304* 1.579 
Chroococcus minutus -0.4413  1.386* 5.962  -0.4468  6.693  1.154*
Chroococcus turgidus -0.5593  1.645* 6.552  0.08240  7.427* 1.608*
Synechocystis 0.1701  1.544  4.854  3.167  4.716  1.898 
Synechocystis minima 0.2134* 1.528  4.799  3.194  4.634  1.885 
Limnothrix 0.2795  1.503  4.714  3.236  4.509  1.864 
Limnothrix redekei 0.3502* 1.477  4.623  3.280  4.375  1.842 
Oscillatoria -0.1567  1.119* 3.836  2.607  3.361* 1.276*
Oscillatoria redekei 0.03527* 1.048  3.589  2.728  2.997  1.216 
Oscillatoria rubescens -0.5564* 1.286  4.409  2.358  4.197* 1.429 
Oscillatoria amphigranulata 0.09889  1.058* 3.143  3.788  2.252* 1.379*
Oscillatoria agardhii -0.1657* 1.123  3.847  2.602  3.378  1.279 
Oscillatoria agardhii var. isothrix -0.1657  1.123  3.847  2.602  3.378  1.279 
Synechococcus 0.4244  1.132  3.555* 3.348  2.886* 1.402*
Heterokontophyta 0.01150  1.916  5.918  4.075  5.937  2.804 
Chrysophyceae -0.005894  1.802  5.583  4.040  5.480  2.644 
Ochromonadales -0.03962  1.782  5.463  4.387  5.232  2.747 
Dinobryaceae -0.1459  1.874  5.658  4.840  5.396  3.033 
Dinobryon -0.2522  1.965* 5.853  5.292  5.560* 3.319*
Dinobryon divergens -0.2081* 1.943  5.779  5.319  5.453* 3.297 
Dinobryon sociale -0.2356  1.946  5.791  5.301  5.474* 3.294 
Dinobryon cylindricum -0.4483* 1.881  5.905  4.481* 5.751* 3.048 
Dinobryon bavaricum -0.1818  1.887  5.589  5.332  5.195* 3.214 
Chromulinaceae -0.08994  1.807  5.608  4.212  5.456  2.748 
Chromulina -0.1403  1.832  5.753* 4.038  5.681* 2.749*
Ochromonadaceae 0.08326  1.646  5.004  4.457  4.595  2.563 
Uroglena 0.08326  1.646  5.004  4.457  4.595  2.563 
Uroglena lindii 0.08326  1.646  5.004  4.457  4.595  2.563 
Erkenia 0.1378  1.585  4.800  4.488  4.312  2.482 
Erkenia subaequiciliata 0.1924  1.525  4.596  4.518  4.029* 2.400 
Ochromonas 0.1516  1.570  4.749  4.495  4.241* 2.461 
Chrysococcaceae 0.02676  1.615  5.154  3.276  5.062  2.119 
Chrysococcus -0.1315  1.775  5.737* 3.121  5.873* 2.334*
Kephyrion 0.2013  1.362  4.357* 3.049  4.041* 1.642*
Haptophyceae 0.06965  1.782  5.607  3.784  5.558  2.555 
Prymnesiales 0.1278  1.649  5.297  3.492  5.178  2.307 
Prymnesiaceae 0.1859  1.515  4.986  3.201  4.799  2.058 
Chrysochromulina 0.2441  1.381* 4.676  2.910  4.420  1.810*
Chrysochromulina parva 0.2251  1.428* 4.727* 2.995  4.502* 1.841*
Bacillariophyceae 0.3759  1.837  6.072  4.101  5.988  3.033 
Pennales 0.3677  1.905  6.628  4.496  6.495  3.615 
Fragilariaceae 0.3595  1.972  7.185  4.891  7.003  4.196 
Asterionella 0.4324  1.872  6.996  4.756  6.737  4.089 
Asterionella formosa 0.5053* 1.772* 6.808  4.621* 6.471* 3.981*
Diatoma 0.3244  2.011  7.316  4.871  7.185* 4.249 
Diatoma elongatum 0.3492  1.983  7.223  4.885  7.056* 4.212 
Fragilaria 0.3571  1.879  7.169  4.693  6.934  4.191 
Fragilaria crotonensis 0.3546* 1.787* 7.154  4.495* 6.865* 4.186*
Synedra 0.5295  2.099  7.444  5.874  7.117  4.761 
Synedra acus 0.6621* 1.970* 7.460  5.655* 7.043* 4.813*
Synedra acus radians 0.7684  1.852  7.063  5.715  6.492* 4.654 
Synedra radians 0.6100* 2.373  7.525  7.686* 6.985  5.433 
Synedra rumpens 0.7046* 1.937  6.950  5.863* 6.440* 4.537 
Synedra filiformis 0.4673* 2.129  7.528  5.874* 7.235  4.796 
Synedra minuscula 0.6413* 2.057  7.300  5.944  6.905  4.726 
Synedra ulna 0.2615* 2.255  8.159* 5.202  8.209* 4.827*
Tabellaria 0.1461  2.065  7.554  4.658  7.547  4.274 
Tabellaria fenestrata 0.1030  2.113  7.715  4.633  7.771* 4.338 
Tabellaria flocculosa -0.02419* 2.111  7.762  4.448* 7.868  4.286 
Tabellaria flocculosa var. asterionelloides -0.1520* 2.159  7.927  4.368  8.110  4.326 
Centrales 0.4936  1.765  6.018  3.381  6.067  2.703 
Coscinodiscaceae 0.6113  1.693  5.964  2.661  6.146  2.373 
Aulacoseira 0.5979  1.810  6.227  3.186  6.388  2.721 
Aulacoseira granulata 0.5845  1.928* 6.490  3.712  6.631* 3.069*
Aulacoseira italica 0.5979  1.810  6.227  3.186  6.388  2.721 
Aulacoseira italica var. subarctica 0.5979  1.810  6.227  3.186  6.388  2.721 
Stephanodiscus 0.7805  1.691  5.802  2.761  5.956* 2.292 
Stephanodiscus hantzschii 0.7138* 1.731* 6.001* 2.424* 6.303* 2.237*
Stephanodiscus binderanus 0.7871  1.794* 5.757  3.192  5.909* 2.353*
Stephanodiscus rotula 0.2320  2.330  7.975* 2.650  8.895* 3.281*
Stephanodiscus neoastraea 0.5488* 2.129  7.268  2.646  7.963* 2.929 
Stephanodiscus parvus 1.059  1.381  4.759  2.919  4.511* 1.874 
Stephanodiscus medius 0.6203  1.869  6.401  2.671  6.787* 2.531 
Stephanodiscus minutus 0.7204* 1.656  5.844  2.390* 6.066  2.179 
Cyclotella 0.5730  1.506* 5.809  1.316  6.171* 1.777*
Cyclotella praeterissima 0.5462  1.660  6.131* 1.925  6.492* 2.174*
Cyclotella meneghiniana 0.4316* 1.832* 6.659* 1.864* 7.237* 2.377*
Achnanthales 0.5526  1.786  5.882  4.238  5.701  3.004 
Achnanthaceae 0.7292  1.735  5.692  4.374  5.413  2.975 
Achnanthes 0.9058  1.684  5.502  4.511  5.125  2.947 
Achnanthes minutissima 1.082* 1.633  5.312  4.647* 4.837* 2.918 
Bacillariales 0.4543  1.814  5.914  4.315  5.742  3.038 
Bacillariaceae 0.5327  1.792  5.756  4.529  5.496  3.044 
Cylindrotheca 0.5327  1.792  5.756  4.529  5.496  3.044 
Nitzschia 0.6111  1.769  5.599  4.742  5.250  3.049 
Nitzschia linearis 0.5579* 1.769  5.655  4.594* 5.349  3.020 
Nitzschia palea 0.7797* 1.635  5.339  4.436* 4.926  2.833 
Nitzschia actinastroides 0.5969* 1.774  5.617  4.734  5.276  3.053 
Nitzschia closterium 0.6111  1.769  5.599  4.742  5.250  3.049 
Nitzschia acicularis 0.5882* 1.875  5.626  5.420* 5.201* 3.294 
Eustigmatophyceae 0.07458  1.827  5.620  3.997  5.561  2.622 
Monodus 0.2638  1.561  4.727* 3.761  4.434* 2.077*
Monodus subterraneus 0.2638  1.561  4.727  3.761  4.434  2.077 
Xanthophyceae -0.1143  1.963  6.080  3.996  6.175  2.843 
Tribonematales -0.2401  2.010  6.241  3.917  6.413  2.882 
Tribonemataceae -0.3659  2.057  6.403  3.838  6.651  2.922 
Tribonema -0.4917* 2.103  6.565  3.759  6.889  2.961 
Tribonema aequale -0.4917  2.103  6.565  3.759  6.889  2.961 
Synurophyceae -0.2753  2.125  6.289  4.567  6.404  3.120 
Mallomonas -0.9572  2.610  7.473  5.000  8.018  3.754 
Mallomonas caudata -1.350* 2.758  8.158* 4.339  9.065* 3.811*
Mallomonas cratis -0.7845* 2.617  7.155  5.809* 7.472* 3.897 
Mallomonas acaroides -0.9644  2.618  7.499  4.996  8.055* 3.765 
Synura -0.4538  2.266  6.221  5.611  6.191  3.434 
Synura petersenii -0.5133* 2.313  6.198  5.959* 6.121* 3.538 
Dinozoa -0.4697  2.406  6.953  4.325  7.470  3.214 
Dinophyceae -0.8953  2.736  7.733  4.608  8.548  3.619 
Gonyaulacales -1.105  2.940  8.163  5.145  9.054  4.011 
Ceratium -1.526  3.348  9.025  6.220  10.07  4.796 
Ceratium hirundinella -1.534* 3.476  9.196* 6.884  10.19* 5.126*
Ceratium furcoides -1.727* 3.423  9.284  6.093  10.45  4.859 
Peridiniales -1.052  2.798  7.864  4.387  8.816  3.543 
Peridiniaceae -1.209  2.859  7.995  4.166  9.085  3.467 
Peridinium -1.366  2.921  8.126  3.946  9.354* 3.391 
Peridinium cinctum -1.595* 3.032* 8.424  3.682  9.859* 3.375*
Peridinium aciculiferum -1.402  2.960  8.259  3.925  9.539* 3.445 
Peridinium willei -1.326* 2.906  8.074  3.971  9.277  3.379 
Gymnodiniales -0.9537  2.801  7.951  4.575  8.850  3.706 
Gymnodiniaceae -1.012  2.866  8.169  4.542  9.153  3.793 
Gymnodinium -1.070  2.931  8.387  4.509  9.455  3.881 
Gymnodinium helveticum -1.132  2.998  8.616  4.474  9.772* 3.972 
Gymnodinium fuscum -1.351  3.242  9.436  4.350  10.91* 4.301 
Gymnodinium lantzschii -0.7871  2.616  7.328  4.669  7.987* 3.457 
Cryptophyta 0.03935  2.130  6.166  4.216  6.401  2.828 
Cryptophyceae 0.1229  2.185  6.158  4.391  6.410  2.846 
Cryptomonadales 0.2064  2.240  6.151  4.567  6.418  2.864 
Cryptomonadaceae 0.2899  2.295  6.143  4.742  6.427  2.882 
Rhodomonas 0.4338  2.186  5.615  5.027  5.691  2.719 
Rhodomonas lens 0.4185  2.276* 5.718  5.336  5.808* 2.856*
Rhodomonas minuta 0.5929  1.986* 4.984  5.003  4.837* 2.420*
Rhodomonas minuta var. nannoplanktica 0.6440  1.945  4.809* 5.099  4.586* 2.374*
Cryptomonas 0.1570* 2.487  6.758  4.586* 7.309  3.085 
Cryptomonas erosa -0.06849* 2.559  7.009  4.444  7.684* 3.136 
Cryptomonas undulata 0.2616* 2.448  6.623  4.652  7.111  3.052 
Cryptomonas phaseolus 0.2616* 2.448  6.623  4.652  7.111  3.052 
Cryptomonas marssonii 0.1639* 2.401  6.473  4.584  6.926* 2.949 
Cryptomonas ovata 0.2353* 2.539* 6.928* 4.497  7.569* 3.117*
Cryptomonas rostratiformis 0.003121* 2.689  7.436  4.502  8.245* 3.365 
Chroomonas 0.3625* 2.268  6.050  4.787  6.290  2.859 
Chlorophyta 0.1440  2.107  6.057  4.205  6.271  2.759 
Chlorophyceae 0.3726  2.028  5.697  4.078  5.863  2.487 
Chlamydomonadales 0.3372  2.137  5.934  3.765  6.324  2.394 
Chlamydomonadaceae 0.5055  2.162  5.719  4.100  6.046  2.357 
Chlamydomonas 0.6737* 2.188* 5.504  4.435* 5.769* 2.320*
Volvocaceae 0.07362  2.171  6.540  2.581  7.315  2.252 
Pandorina -0.07947  2.341  7.113  2.494  8.108  2.481 
Pandorina morum -0.2326  2.511  7.685  2.408  8.901* 2.710 
Eudorina 0.07362  2.171  6.540  2.581  7.315  2.252 
Eudorina unicocca 0.07362  2.171  6.540  2.581  7.315  2.252 
Volvox -0.03690  2.035  6.575  1.484  7.512  1.880 
Volvox aureus 0.003648* 1.985  6.502  1.312* 7.433  1.789 
Volvox globator -0.1880* 1.947  6.682  0.5578* 7.788  1.598 
Phacotaceae 0.3972  2.186  5.779  4.301  6.072  2.482 
Phacotus 0.4571  2.236  5.625  4.836  5.820* 2.570 
Phacotus lenticularis 0.4629  2.345* 5.673  5.341  5.849* 2.739*
Chlorococcales 0.6173  1.825  5.046  4.252  4.927  2.276 
Oocystaceae 0.6599  1.782  4.739  4.559  4.482  2.230 
Chlorella 0.8559* 1.475* 3.882* 3.895* 3.469* 1.542*
Chlorella pyrenoidosa 0.8559  1.475  3.882  3.895  3.469  1.542 
Chlorella vulgaris 0.6803* 1.487  3.927  3.780  3.559* 1.509 
Chlorella minutissima 1.156* 1.242  3.353  3.522* 2.782* 1.186 
Ankistrodesmus 0.5784  1.998  5.185  5.445  4.913* 2.798 
Ankistrodesmus braunii 0.5784  1.998  5.185  5.445  4.913  2.798 
Ankistrodesmus falcatus 0.6760* 2.014  4.960  6.432  4.415  3.098 
Ankistrodesmus falcatus var. spirilliformis 0.8560  2.000  4.630* 7.470  3.762* 3.372*
Selenastrum 0.6599  1.782  4.739  4.559  4.482  2.230 
Selenastrum capricornutum 0.6599  1.782  4.739  4.559  4.482  2.230 
Oocystis 0.5880  1.832  4.846  4.645  4.620  2.304 
Oocystis pusilla 0.5162* 1.881  4.952  4.730* 4.757  2.378 
Scenedesmaceae 0.7110  1.756  5.092  3.945  4.981  2.237 
Coelastrum 0.7110  1.756  5.092  3.945  4.981  2.237 
Scenedesmus 0.8047* 1.686* 5.137  3.639  5.035* 2.198*
Scenedesmus obliquus 0.8047  1.686  5.137  3.639  5.035  2.198 
Scenedesmus acutus 1.002* 1.562  4.853  3.470* 4.658  2.021 
Scenedesmus acuminatus 0.8047  1.686  5.137  3.639  5.035  2.198 
Scenedesmus protuberans 0.8047  1.686  5.137  3.639  5.035  2.198 
Scenedesmus quadricauta 0.7090* 1.799* 5.415  3.912* 5.361  2.435*
Chlorococcaceae 0.7257  1.733  4.656  4.424  4.381  2.150 
Ankyra 0.8392  1.763  4.452  5.231  3.976  2.358 
Ankyra judayi 0.9527  1.793  4.248* 6.037  3.571* 2.565*
Tetraedron 0.7206  1.610  4.469  3.791  4.239  1.816 
Tetraedron minimum 0.7154  1.487* 4.282  3.157  4.097* 1.482*
Sphaeropleales 0.4075  1.989  5.566  4.098  5.682  2.435 
Hydrodictyaceae 0.2755  2.136  6.060  4.023  6.367  2.632 
Pediastrum 0.1434  2.283  6.553  3.948  7.051* 2.830 
Pediastrum boryanum 0.3062  2.102  5.945  4.040  6.208* 2.586 
Selenastraceae 0.5745  1.804  4.942  4.192  4.817  2.185 
Monoraphidium 0.7415  1.619  4.318  4.287  3.952* 1.935 
Monoraphidium contortum 0.6524  1.718  4.651  4.236  4.414* 2.068 
Monoraphidium minutum 0.7415  1.619  4.318  4.287  3.952  1.935 
Tetrasporales 0.3571  2.083  5.880  4.071  6.112  2.570 
Palmellaceae 0.3415  2.138  6.064  4.064  6.361  2.654 
Sphaerocystis 0.3259  2.193  6.247  4.057  6.611  2.737 
Sphaerocystis schroeteri 0.3104* 2.247  6.431  4.050* 6.860* 2.820 
Trebouxiophyceae 0.04449  2.217  6.429  4.149  6.787  2.908 
Dictyosphaerium -0.2539  2.549  7.544  3.980  8.333* 3.355 
Dictyosphaerium pulchellum -0.2539  2.549  7.544  3.980  8.333  3.355 
Ulvophyceae 0.2029  2.106  5.930  4.552  6.042  2.832 
Ulotrichales 0.2619  2.106  5.803  4.899  5.813  2.905 
Ulotrichaceae 0.3209  2.106  5.676  5.246  5.584  2.977 
Ulothrix 0.3798  2.105* 5.549  5.592  5.355* 3.050*
Ulothrix subconstricta 0.3875  2.097  5.521  5.597  5.315* 3.038 
Ulothrix subtilissima 0.3798  2.105  5.549  5.592  5.355  3.050 
Charophyta -0.004189  2.221  6.654  4.351  6.949  3.194 
Zygnemophyceae 0.03579  2.366  7.136  4.660  7.506  3.578 
Desmidiales -0.06291  2.598  7.756  5.145  8.250  4.066 
Closteriaceae -0.02059  2.756  7.978  6.206  8.340  4.606 
Closterium 0.02174  2.913  8.201  7.266  8.431  5.146 
Closterium aciculare 0.06406  3.071  8.423* 8.327  8.522* 5.686*
Desmidiaceae -0.2039  2.671  8.154  4.570  8.902  4.014 
Staurastrum -0.3005  2.829  8.666  4.719  9.551* 4.328 
Staurastrum pingue -0.2609* 2.870  8.780* 4.948  9.644* 4.491*
Staurastrum paradoxum -0.3486  2.883  8.845  4.692  9.800* 4.400 
Staurastrum cingulum -0.3432* 2.843  8.713  4.692  9.622* 4.337 
Cosmarium -0.2484  2.587  8.040  3.845  8.906  3.650 
Cosmarium depressum -0.2929  2.503  7.927* 3.121  8.910* 3.285*
Zygnematales 0.1745  2.280  6.997  4.484  7.320  3.473 
Zygnemataceae 0.3132  2.194  6.858  4.309  7.134  3.368 
Mougeotia 0.4519  2.108  6.720  4.133  6.947* 3.264 
Mougeotia thylespora 0.6166* 1.993* 6.484  3.972* 6.626* 3.120*
Euglenozoa -0.02673  2.140  6.385  4.058  6.674  2.918 
Euglenoidea -0.009278  2.204  6.597  4.075  6.956  3.026 
Euglenales 0.008169  2.268  6.809  4.092  7.237  3.133 
Euglenaceae 0.02562  2.332  7.021  4.109  7.519  3.241 
Euglena 0.04306  2.396  7.233  4.126  7.801* 3.349 
Euglena gracilis 0.1562* 2.354  7.088  4.197  7.587  3.314 

Cross-validation details

In addition to estimating missing values, PhyloPars performs cross-validation: it temporarily excludes each observation from the available information, in order to calculate its best estimate given all other observations and the optimal phylogenetic covariances and phenotypic variances. This provides a detailed estimate of the error and bias one may expect for the estimated missing feature values. The distributions of estimation errors as calculated through cross-validation are shown below; these are compared with two null models (red and green curves) in order to assess the improvement resulting from the PhyloPars evolutionary model.

Maximum growth rate

Cross-validation error Click for help
absolute bias for maximum growth rate
 evolutionary model Click for helpmean model Click for helpnearest neighbor model Click for help
mean bias Click for help -0.00227 ln /d 8.81e-18 ln /d 0.0277 ln /d
mean error Click for help0.344 ln /d 0.583 ln /d 0.459 ln /d


Diameter

Cross-validation error Click for help
absolute bias for diameter
 evolutionary model Click for helpmean model Click for helpnearest neighbor model Click for help
mean bias Click for help -0.0125 ln µm 4.31e-16 ln µm -0.205 ln µm
mean error Click for help0.366 ln µm 0.495 ln µm 0.622 ln µm


Surface area

Cross-validation error Click for help
absolute bias for surface area
 evolutionary model Click for helpmean model Click for helpnearest neighbor model Click for help
mean bias Click for help 0.00592 ln µm² -2.96e-16 ln µm² -0.285 ln µm²
mean error Click for help0.22 ln µm² 1.62 ln µm² 1.45 ln µm²


Phosphate affinity

Cross-validation error Click for help
absolute bias for phosphate affinity
 evolutionary model Click for helpmean model Click for helpnearest neighbor model Click for help
mean bias Click for help -0.053 ln /d/µM 8.73e-16 ln /d/µM 0.00903 ln /d/µM
mean error Click for help1.08 ln /d/µM 1.5 ln /d/µM 1.29 ln /d/µM


Volume

Cross-validation error Click for help
absolute bias for volume
 evolutionary model Click for helpmean model Click for helpnearest neighbor model Click for help
mean bias Click for help -0.0336 ln µm³ -4.63e-16 ln µm³ -0.0518 ln µm³
mean error Click for help0.797 ln µm³ 1.76 ln µm³ 1.17 ln µm³


Length

Cross-validation error Click for help
absolute bias for length
 evolutionary model Click for helpmean model Click for helpnearest neighbor model Click for help
mean bias Click for help -0.0436 ln µm 7.98e-16 ln µm -0.0568 ln µm
mean error Click for help0.455 ln µm 0.951 ln µm 0.776 ln µm

The PhyloPars tool is (c) Jorn Bruggeman 2017. If you are experiencing problems with this tool, please contact jbr [at] pml.ac.uk or bwbrandt [at] few.vu.nl.