Test: BIOMD0000000060.xml - Ok

test: BIOMD0000000060.xml
model: xml, reaction graph
plots: plot
comparison: comparison of simulators

Reaction graph

Note: downloaded from http://www.ebi.ac.uk/compneur-srv/biomodels/models-main/publ/BIOMD0000000060.gif

Plots

Note: downloaded from http://www.ebi.ac.uk/compneur-srv/biomodels/models-main/simu/MODEL0332756009.JPG

Comparison with other simulators

Legend:

Text color indicates difference between values:
  -  no significant difference ( < 0.1%)
  -  small relative error ( > 0.1% and <50%)
  -  simulation results significantly differ ( >50%)

Variables: Open_probability  Pc2  Pc1  Po1  Po2 
Simulators: BioUML  ByoDyn  CVODE  Jarnac  MathSBML  Oscill8 Core  SBToolbox2  SBWOdeSolver  VCell  copasi  edu.kgi.roadRunner  jsim 
timesimulation Open_probability Pc2 Pc1 Po1 Po2
var error var error var error var error var error
0.0 BioUML0,00000E00,003,70000E-20,009,63000E-10,000,00000E00,000,00000E00,00
0.0 ByoDyn0,00000E00,003,70000E-20,009,63000E-10,000,00000E00,000,00000E00,00
0.0 CVODE - - 3,70000E-20,009,63000E-10,000,00000E00,000,00000E00,00
0.0 Jarnac - - 3,70000E-20,009,63000E-10,000,00000E00,000,00000E00,00
0.0 MathSBML - - 3,70000E-20,009,63000E-10,000,00000E00,000,00000E00,00
0.0 Oscill8 Core - - - - 9,63000E-10,000,00000E00,000,00000E00,00
0.0 SBToolbox20,00000E00,003,70000E-20,009,63000E-10,000,00000E00,000,00000E00,00
0.0 SBWOdeSolver - - 3,70000E-20,009,63000E-10,000,00000E00,000,00000E00,00
0.0 VCell - - 3,70000E-20,009,63000E-10,000,00000E00,000,00000E00,00
0.0 copasi - - 3,70000E-20,009,63000E-10,000,00000E00,000,00000E00,00
0.0 edu.kgi.roadRunner - - 3,70000E-20,009,63000E-10,000,00000E00,000,00000E00,00
0.0 jsim0,00000E00,003,70000E-20,009,63000E-10,000,00000E00,000,00000E00,00
0.2 BioUML8,74147E-10,001,19182E-10,006,67011E-30,002,27829E-10,006,46319E-10,00
0.2 ByoDyn8,74147E-10,001,19182E-10,006,67011E-30,002,27829E-10,006,46319E-10,00
0.2 CVODE - - 1,19182E-10,006,67011E-30,002,27829E-10,006,46319E-10,00
0.2 Jarnac - - 1,19182E-10,006,67011E-30,002,27829E-10,006,46319E-10,00
0.2 MathSBML - - 1,19182E-10,006,67011E-30,002,27829E-10,006,46319E-10,00
0.2 Oscill8 Core - - - - 6,67012E-30,002,27829E-10,006,46319E-10,00
0.2 SBToolbox28,74127E-10,001,19202E-10,006,66999E-30,002,27820E-10,006,46307E-10,00
0.2 SBWOdeSolver - - 1,19182E-10,006,67012E-30,002,27829E-10,006,46319E-10,00
0.2 VCell - - 1,19182E-10,006,67011E-30,002,27829E-10,006,46319E-10,00
0.2 copasi - - 1,19182E-10,006,67012E-30,002,27829E-10,006,46319E-10,00
0.2 edu.kgi.roadRunner - - 1,19182E-10,006,67011E-30,002,27829E-10,006,46319E-10,00
0.2 jsim8,74147E-10,001,19182E-10,006,67012E-30,002,27829E-10,006,46319E-10,00
0.4 BioUML8,01467E-10,001,92418E-10,006,11559E-30,002,08890E-10,005,92577E-10,00
0.4 ByoDyn8,01467E-10,001,92418E-10,006,11559E-30,002,08890E-10,005,92577E-10,00
0.4 CVODE - - 1,92418E-10,006,11559E-30,002,08890E-10,005,92577E-10,00
0.4 Jarnac - - 1,92418E-10,006,11559E-30,002,08890E-10,005,92577E-10,00
0.4 MathSBML - - 1,92418E-10,006,11559E-30,002,08890E-10,005,92577E-10,00
0.4 Oscill8 Core - - - - 6,11559E-30,002,08890E-10,005,92577E-10,00
0.4 SBToolbox28,01408E-10,001,92471E-10,006,11515E-30,002,08876E-10,005,92532E-10,00
0.4 SBWOdeSolver - - 1,92418E-10,006,11559E-30,002,08890E-10,005,92577E-10,00
0.4 VCell - - 1,92418E-10,006,11559E-30,002,08890E-10,005,92577E-10,00
0.4 copasi - - 1,92417E-10,006,11559E-30,002,08890E-10,005,92577E-10,00
0.4 edu.kgi.roadRunner - - 1,92418E-10,006,11559E-30,002,08890E-10,005,92577E-10,00
0.4 jsim8,01467E-10,001,92418E-10,006,11559E-30,002,08890E-10,005,92577E-10,00
0.6 BioUML7,36390E-10,002,57991E-10,005,61907E-30,001,91933E-10,005,44457E-10,00
0.6 ByoDyn7,36390E-10,002,57991E-10,005,61907E-30,001,91933E-10,005,44457E-10,00
0.6 CVODE - - 2,57991E-10,005,61907E-30,001,91933E-10,005,44457E-10,00
0.6 Jarnac - - 2,57991E-10,005,61907E-30,001,91933E-10,005,44457E-10,00
0.6 MathSBML - - 2,57991E-10,005,61907E-30,001,91933E-10,005,44457E-10,00
0.6 Oscill8 Core - - - - 5,61908E-30,001,91933E-10,005,44458E-10,00
0.6 SBToolbox27,36315E-10,002,58073E-10,005,61851E-30,001,91909E-10,005,44397E-10,00
0.6 SBWOdeSolver - - 2,57991E-10,005,61909E-30,001,91933E-10,005,44458E-10,00
0.6 VCell - - 2,57991E-10,005,61907E-30,001,91933E-10,005,44457E-10,00
0.6 copasi - - 2,57990E-10,005,61908E-30,001,91933E-10,005,44458E-10,00
0.6 edu.kgi.roadRunner - - 2,57991E-10,005,61907E-30,001,91933E-10,005,44457E-10,00
0.6 jsim7,36390E-10,002,57991E-10,005,61908E-30,001,91933E-10,005,44457E-10,00
0.8 BioUML6,78122E-10,003,16704E-10,005,17451E-30,001,76750E-10,005,01372E-10,00
0.8 ByoDyn6,78122E-10,003,16704E-10,005,17451E-30,001,76750E-10,005,01372E-10,00
0.8 CVODE - - 3,16704E-10,005,17451E-30,001,76750E-10,005,01372E-10,00
0.8 Jarnac - - 3,16704E-10,005,17451E-30,001,76750E-10,005,01372E-10,00
0.8 MathSBML - - 3,16704E-10,005,17451E-30,001,76750E-10,005,01372E-10,00
0.8 Oscill8 Core - - - - 5,17451E-30,001,76750E-10,005,01373E-10,00
0.8 SBToolbox26,77951E-10,003,16877E-10,005,17319E-30,001,76708E-10,005,01244E-10,00
0.8 SBWOdeSolver - - 3,16704E-10,005,17451E-30,001,76750E-10,005,01373E-10,00
0.8 VCell - - 3,16704E-10,005,17451E-30,001,76750E-10,005,01372E-10,00
0.8 copasi - - 3,16704E-10,005,17451E-30,001,76750E-10,005,01372E-10,00
0.8 edu.kgi.roadRunner - - 3,16704E-10,005,17451E-30,001,76750E-10,005,01372E-10,00
0.8 jsim6,78122E-10,003,16704E-10,005,17451E-30,001,76750E-10,005,01372E-10,00
1.0 BioUML6,25950E-10,003,69274E-10,004,77646E-30,001,63155E-10,004,62795E-10,00
1.0 ByoDyn6,25950E-10,003,69274E-10,004,77646E-30,001,63155E-10,004,62795E-10,00
1.0 CVODE - - 3,69274E-10,004,77646E-30,001,63155E-10,004,62795E-10,00
1.0 Jarnac - - 3,69274E-10,004,77646E-30,001,63155E-10,004,62795E-10,00
1.0 MathSBML - - 3,69274E-10,004,77646E-30,001,63155E-10,004,62795E-10,00
1.0 Oscill8 Core - - - - 4,77646E-30,001,63155E-10,004,62795E-10,00
1.0 SBToolbox26,25748E-10,003,69479E-10,004,77490E-30,001,63105E-10,004,62644E-10,00
1.0 SBWOdeSolver - - 3,69274E-10,004,77646E-30,001,63155E-10,004,62795E-10,00
1.0 VCell - - 3,69274E-10,004,77646E-30,001,63155E-10,004,62795E-10,00
1.0 copasi - - 3,69274E-10,004,77645E-30,001,63155E-10,004,62794E-10,00
1.0 edu.kgi.roadRunner - - 3,69274E-10,004,77646E-30,001,63155E-10,004,62795E-10,00
1.0 jsim6,25950E-10,003,69274E-10,004,77646E-30,001,63155E-10,004,62795E-10,00
1.2 BioUML5,79236E-10,004,16344E-10,004,42005E-30,001,50983E-10,004,28253E-10,00
1.2 ByoDyn5,79236E-10,004,16344E-10,004,42005E-30,001,50983E-10,004,28253E-10,00
1.2 CVODE - - 4,16344E-10,004,42005E-30,001,50983E-10,004,28253E-10,00
1.2 Jarnac - - 4,16344E-10,004,42005E-30,001,50983E-10,004,28253E-10,00
1.2 MathSBML - - 4,16344E-10,004,42005E-30,001,50983E-10,004,28253E-10,00
1.2 Oscill8 Core - - - - 4,42005E-30,001,50983E-10,004,28254E-10,00
1.2 SBToolbox25,78995E-10,004,16592E-10,004,41822E-30,001,50920E-10,004,28076E-10,00
1.2 SBWOdeSolver - - 4,16344E-10,004,42006E-30,001,50983E-10,004,28254E-10,00
1.2 VCell - - 4,16344E-10,004,42005E-30,001,50983E-10,004,28253E-10,00
1.2 copasi - - 4,16344E-10,004,42004E-30,001,50983E-10,004,28253E-10,00
1.2 edu.kgi.roadRunner - - 4,16344E-10,004,42005E-30,001,50983E-10,004,28253E-10,00
1.2 jsim5,79236E-10,004,16344E-10,004,42005E-30,001,50983E-10,004,28253E-10,00
1.4 BioUML5,37410E-10,004,58489E-10,004,10093E-30,001,40084E-10,003,97326E-10,00
1.4 ByoDyn5,37410E-10,004,58489E-10,004,10093E-30,001,40084E-10,003,97326E-10,00
1.4 CVODE - - 4,58489E-10,004,10093E-30,001,40084E-10,003,97326E-10,00
1.4 Jarnac - - 4,58489E-10,004,10093E-30,001,40084E-10,003,97326E-10,00
1.4 MathSBML - - 4,58489E-10,004,10093E-30,001,40084E-10,003,97326E-10,00
1.4 Oscill8 Core - - - - 4,10093E-30,001,40084E-10,003,97326E-10,00
1.4 SBToolbox25,37109E-10,004,58799E-10,004,09863E-30,001,40003E-10,003,97097E-10,00
1.4 SBWOdeSolver - - 4,58490E-10,004,10093E-30,001,40084E-10,003,97326E-10,00
1.4 VCell - - 4,58489E-10,004,10093E-30,001,40084E-10,003,97326E-10,00
1.4 copasi - - 4,58490E-10,004,10092E-30,001,40084E-10,003,97325E-10,00
1.4 edu.kgi.roadRunner - - 4,58489E-10,004,10093E-30,001,40084E-10,003,97326E-10,00
1.4 jsim5,37410E-10,004,58489E-10,004,10093E-30,001,40084E-10,003,97326E-10,00
1.6 BioUML4,99960E-10,004,96225E-10,003,81519E-30,001,30325E-10,003,69634E-10,00
1.6 ByoDyn4,99960E-10,004,96225E-10,003,81519E-30,001,30325E-10,003,69634E-10,00
1.6 CVODE - - 4,96225E-10,003,81519E-30,001,30325E-10,003,69634E-10,00
1.6 Jarnac - - 4,96225E-10,003,81519E-30,001,30325E-10,003,69634E-10,00
1.6 MathSBML - - 4,96225E-10,003,81519E-30,001,30325E-10,003,69634E-10,00
1.6 Oscill8 Core - - - - 3,81520E-30,001,30326E-10,003,69635E-10,00
1.6 SBToolbox24,99602E-10,004,96585E-10,003,81246E-30,001,30234E-10,003,69370E-10,00
1.6 SBWOdeSolver - - 4,96226E-10,003,81520E-30,001,30325E-10,003,69634E-10,00
1.6 VCell - - 4,96225E-10,003,81519E-30,001,30325E-10,003,69634E-10,00
1.6 copasi - - 4,96226E-10,003,81519E-30,001,30325E-10,003,69633E-10,00
1.6 edu.kgi.roadRunner - - 4,96225E-10,003,81519E-30,001,30325E-10,003,69634E-10,00
1.6 jsim4,99960E-10,004,96225E-10,003,81520E-30,001,30325E-10,003,69634E-10,00
1.8 BioUML4,66427E-10,005,30013E-10,003,55936E-30,001,21588E-10,003,44839E-10,00
1.8 ByoDyn4,66427E-10,005,30013E-10,003,55936E-30,001,21588E-10,003,44839E-10,00
1.8 CVODE - - 5,30013E-10,003,55936E-30,001,21588E-10,003,44839E-10,00
1.8 Jarnac - - 5,30013E-10,003,55936E-30,001,21588E-10,003,44839E-10,00
1.8 MathSBML - - 5,30013E-10,003,55936E-30,001,21588E-10,003,44839E-10,00
1.8 Oscill8 Core - - - - 3,55936E-30,001,21588E-10,003,44840E-10,00
1.8 SBToolbox24,66058E-10,005,30390E-10,003,55650E-30,001,21494E-10,003,44562E-10,00
1.8 SBWOdeSolver - - 5,30014E-10,003,55936E-30,001,21588E-10,003,44839E-10,00
1.8 VCell - - 5,30013E-10,003,55936E-30,001,21588E-10,003,44839E-10,00
1.8 copasi - - 5,30014E-10,003,55935E-30,001,21588E-10,003,44839E-10,00
1.8 edu.kgi.roadRunner - - 5,30013E-10,003,55936E-30,001,21588E-10,003,44839E-10,00
1.8 jsim4,66427E-10,005,30013E-10,003,55936E-30,001,21588E-10,003,44839E-10,00
2.0 BioUML4,36403E-10,005,60266E-10,003,33028E-30,001,13764E-10,003,22639E-10,00
2.0 ByoDyn4,36403E-10,005,60266E-10,003,33028E-30,001,13764E-10,003,22639E-10,00
2.0 CVODE - - 5,60266E-10,003,33028E-30,001,13764E-10,003,22639E-10,00
2.0 Jarnac - - 5,60266E-10,003,33028E-30,001,13764E-10,003,22639E-10,00
2.0 MathSBML - - 5,60266E-10,003,33028E-30,001,13764E-10,003,22639E-10,00
2.0 Oscill8 Core - - - - 3,33029E-30,001,13765E-10,003,22639E-10,00
2.0 SBToolbox24,35916E-10,115,60752E-10,003,32658E-30,111,13636E-10,113,22280E-10,11
2.0 SBWOdeSolver - - 5,60267E-10,003,33028E-30,001,13764E-10,003,22639E-10,00
2.0 VCell - - 5,60266E-10,003,33028E-30,001,13764E-10,003,22639E-10,00
2.0 copasi - - 5,60268E-10,003,33027E-30,001,13764E-10,003,22638E-10,00
2.0 edu.kgi.roadRunner - - 5,60266E-10,003,33028E-30,001,13764E-10,003,22639E-10,00
2.0 jsim4,36403E-10,005,60266E-10,003,33028E-30,001,13764E-10,003,22639E-10,00
2.2 BioUML4,09521E-10,005,87354E-10,003,12518E-30,001,06759E-10,003,02761E-10,00
2.2 ByoDyn4,09521E-10,005,87354E-10,003,12518E-30,001,06759E-10,003,02761E-10,00
2.2 CVODE - - 5,87354E-10,003,12518E-30,001,06759E-10,003,02761E-10,00
2.2 Jarnac - - 5,87354E-10,003,12518E-30,001,06759E-10,003,02761E-10,00
2.2 MathSBML - - 5,87354E-10,003,12518E-30,001,06759E-10,003,02761E-10,00
2.2 Oscill8 Core - - - - 3,12518E-30,001,06760E-10,003,02761E-10,00
2.2 SBToolbox24,09099E-10,105,87778E-10,003,12193E-30,101,06653E-10,003,02447E-10,10
2.2 SBWOdeSolver - - 5,87355E-10,003,12517E-30,001,06759E-10,003,02761E-10,00
2.2 VCell - - 5,87354E-10,003,12518E-30,001,06759E-10,003,02761E-10,00
2.2 copasi - - 5,87356E-10,003,12517E-30,001,06759E-10,003,02760E-10,00
2.2 edu.kgi.roadRunner - - 5,87354E-10,003,12518E-30,001,06759E-10,003,02761E-10,00
2.2 jsim4,09521E-10,005,87354E-10,003,12518E-30,001,06759E-10,003,02761E-10,00
2.4 BioUML3,85450E-10,006,11608E-10,002,94153E-30,001,00487E-10,002,84963E-10,00
2.4 ByoDyn3,85450E-10,006,11608E-10,002,94153E-30,001,00487E-10,002,84963E-10,00
2.4 CVODE - - 6,11608E-10,002,94153E-30,001,00487E-10,002,84963E-10,00
2.4 Jarnac - - 6,11608E-10,002,94153E-30,001,00487E-10,002,84963E-10,00
2.4 MathSBML - - 6,11608E-10,002,94153E-30,001,00487E-10,002,84963E-10,00
2.4 Oscill8 Core - - - - 2,94153E-30,001,00488E-10,002,84963E-10,00
2.4 SBToolbox23,84936E-10,136,12124E-10,002,93761E-30,131,00352E-10,132,84584E-10,13
2.4 SBWOdeSolver - - 6,11609E-10,002,94153E-30,001,00487E-10,002,84963E-10,00
2.4 VCell - - 6,11608E-10,002,94153E-30,001,00487E-10,002,84963E-10,00
2.4 copasi - - 6,11609E-10,002,94152E-30,001,00487E-10,002,84962E-10,00
2.4 edu.kgi.roadRunner - - 6,11608E-10,002,94153E-30,001,00487E-10,002,84963E-10,00
2.4 jsim3,85450E-10,006,11608E-10,002,94153E-30,001,00487E-10,002,84963E-10,00
2.6 BioUML3,63898E-10,006,33325E-10,002,77710E-30,009,48716E-20,002,69027E-10,00
2.6 ByoDyn3,63898E-10,006,33325E-10,002,77710E-30,009,48716E-20,002,69027E-10,00
2.6 CVODE - - 6,33325E-10,002,77710E-30,009,48716E-20,002,69027E-10,00
2.6 Jarnac - - 6,33325E-10,002,77710E-30,009,48716E-20,002,69027E-10,00
2.6 MathSBML - - 6,33325E-10,002,77710E-30,009,48716E-20,002,69027E-10,00
2.6 Oscill8 Core - - - - 2,77710E-30,009,48717E-20,002,69027E-10,00
2.6 SBToolbox23,63363E-10,156,33865E-10,002,77300E-30,159,47316E-20,152,68625E-10,15
2.6 SBWOdeSolver - - 6,33325E-10,002,77709E-30,009,48715E-20,002,69026E-10,00
2.6 VCell - - 6,33325E-10,002,77710E-30,009,48716E-20,002,69027E-10,00
2.6 copasi - - 6,33325E-10,002,77709E-30,009,48714E-20,002,69026E-10,00
2.6 edu.kgi.roadRunner - - 6,33325E-10,002,77710E-30,009,48716E-20,002,69027E-10,00
2.6 jsim3,63898E-10,006,33325E-10,002,77710E-30,009,48715E-20,002,69027E-10,00
2.8 BioUML3,44601E-10,006,52769E-10,002,62987E-30,008,98433E-20,002,54758E-10,00
2.8 ByoDyn3,44601E-10,006,52769E-10,002,62987E-30,008,98433E-20,002,54758E-10,00
2.8 CVODE - - 6,52769E-10,002,62987E-30,008,98433E-20,002,54758E-10,00
2.8 Jarnac - - 6,52769E-10,002,62987E-30,008,98433E-20,002,54758E-10,00
2.8 MathSBML - - 6,52769E-10,002,62987E-30,008,98433E-20,002,54758E-10,00
2.8 Oscill8 Core - - - - 2,62987E-30,008,98434E-20,002,54758E-10,00
2.8 SBToolbox23,44105E-10,146,53272E-10,002,62606E-30,148,97139E-20,142,54390E-10,14
2.8 SBWOdeSolver - - 6,52770E-10,002,62986E-30,008,98431E-20,002,54758E-10,00
2.8 VCell - - 6,52769E-10,002,62987E-30,008,98433E-20,002,54758E-10,00
2.8 copasi - - 6,52770E-10,002,62986E-30,008,98431E-20,002,54758E-10,00
2.8 edu.kgi.roadRunner - - 6,52769E-10,002,62987E-30,008,98433E-20,002,54758E-10,00
2.8 jsim3,44601E-10,006,52769E-10,002,62987E-30,008,98432E-20,002,54758E-10,00
3.0 BioUML3,27323E-10,006,70179E-10,002,49804E-30,008,53410E-20,002,41982E-10,00
3.0 ByoDyn3,27323E-10,006,70179E-10,002,49804E-30,008,53410E-20,002,41982E-10,00
3.0 CVODE - - 6,70179E-10,002,49804E-30,008,53410E-20,002,41982E-10,00
3.0 Jarnac - - 6,70179E-10,002,49804E-30,008,53410E-20,002,41982E-10,00
3.0 MathSBML - - 6,70179E-10,002,49804E-30,008,53410E-20,002,41982E-10,00
3.0 Oscill8 Core - - - - 2,49804E-30,008,53411E-20,002,41982E-10,00
3.0 SBToolbox23,26756E-10,176,70751E-10,002,49369E-30,178,51932E-20,172,41563E-10,17
3.0 SBWOdeSolver - - 6,70180E-10,002,49804E-30,008,53409E-20,002,41982E-10,00
3.0 VCell - - 6,70179E-10,002,49804E-30,008,53410E-20,002,41982E-10,00
3.0 copasi - - 6,70180E-10,002,49803E-30,008,53409E-20,002,41982E-10,00
3.0 edu.kgi.roadRunner - - 6,70179E-10,002,49804E-30,008,53410E-20,002,41982E-10,00
3.0 jsim3,27323E-10,006,70179E-10,002,49804E-30,008,53410E-20,002,41982E-10,00
3.2 BioUML3,11852E-10,006,85768E-10,002,38000E-30,008,13098E-20,002,30543E-10,00
3.2 ByoDyn3,11852E-10,00