KEGG Software Authors: Minoru Kanehisa; Susumu Goto Cited in: 194 Publications (2003–2022) Related Software: Bioconductor; R; UniProt; Cytoscape; MetaCyc; Reactome; … Main Fields: Combinatorics (05-XX); Statistics (62-XX); Computer science (68-XX)
Gromacs Software Authors: Mark James Abraham; Teemu Murtola; Roland Schulz; Szilárd Páll; Jeremy C.Smith; Berk Hess; Erik Lindahl Cited in: 102 Publications (2002–2023) Related Software: NAMD; CHARMM; LINCS; AMBER; VMD; CUDA; … Main Fields: Numerical analysis (65-XX); Mechanics of deformable solids (74-XX); Fluid mechanics (76-XX)
Bio-PEPA Software Authors: Federica Ciocchetta, Maria Luisa Guerriero, Vashti Galpin, Jane Hillston, Giulio Caravagna, Allan Clark, Andrea Degasperi, Adam Duguid, Kanimozhi Ellavarason, Stephen Gilmore, Laurence Loewe, Dimitrios Milios Cited in: 91 Publications (2008–2022) Related Software: PEPA; PRISM; BIOCHAM; BioNetGen; BlenX; LBS; … Main Fields: Ordinary differential equations (34-XX); Probability theory and stochastic processes (60-XX); Computer science (68-XX)
VMD Software Authors: Andrew Dalke, William Humphrey, Klaus Schulten Cited in: 76 Publications (1999–2023) Related Software: NAMD; Gromacs; CHARMM; PyMOL; RasMol; APBS; … Main Fields: Numerical analysis (65-XX); Mechanics of deformable solids (74-XX); Fluid mechanics (76-XX)
LAMMPS Software Authors: Plimpton, Steve Cited in: 66 Publications (1995–2023) Related Software: Python; Gromacs; NAMD; Peridigm; CUDA; CHARMM; … Main Fields: Numerical analysis (65-XX); Mechanics of deformable solids (74-XX); Fluid mechanics (76-XX)
DAISY Software Authors: Giuseppina Bellu , Maria Pia Saccomani, Stefania Audoly , Leontina D’Angiò Cited in: 56 Publications (2008–2022) Related Software: GenSSI; SIAN; COMBOS; BLAD; ObservabilityTest; Maple; … Main Fields: Commutative algebra (13-XX); Ordinary differential equations (34-XX); Statistics (62-XX)
BIOCHAM Software Authors: Chabrier, N., Fages, F., Soliman, S. Cited in: 45 Publications (2005–2022) Related Software: Bio-PEPA; PRISM; PEPA; BioNetGen; LBS; GNA; … Main Fields: Mathematical logic and foundations (03-XX); Probability theory and stochastic processes (60-XX); Computer science (68-XX)
SINTEF Software Authors: Hasle, Geir (ed.); Lie, Knut-Andreas (ed.); Quak, Ewald (ed.) Cited in: 37 Publications (2007–2022) Related Software: Matlab; VRP; CPLEX; Cython; Plotly; Matplotlib; … Main Fields: Partial differential equations (35-XX); Numerical analysis (65-XX); Mechanics of deformable solids (74-XX)
iLoc-Euk Software Authors: Chou, K. -C.; Wu, Z. -C.; Xiao, X. Cited in: 37 Publications (2011–2019) Related Software: iLoc-Hum; Cell-PLoc; iLoc-Virus; Plant-mPLoc; iLoc-Gpos; LIBSVM; … Main Fields: Harmonic analysis on Euclidean spaces (42-XX); Statistics (62-XX); Computer science (68-XX)
PDB2PQR Software Authors: T. Dolinsky, J. Nielsen, A. McCammon, N. Baker Cited in: 33 Publications (2006–2022) Related Software: APBS; MIBPB; TABI; tabipb; CHARMM; PBEQ-Solver; … Main Fields: Partial differential equations (35-XX); Numerical analysis (65-XX); Optics, electromagnetic theory (78-XX)
REVEAL Software Authors: Liang, S., Fuhrman, S., Somogyi, R Cited in: 24 Publications (2003–2022) Related Software: KEGG; R; BoolNet; E-CELL; t-SNE; GEPASI; … Main Fields: Statistics (62-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)
pLoc-mEuk Software Authors: Cheng, X.; Xiao, X. Cited in: 30 Publications (2017–2019) Related Software: pLoc-mPlant; iRNA-PseColl; pLoc-mAnimal; Pse-in-One; iRSpot-EL; pLoc-mGneg; … Main Fields: Partial differential equations (35-XX); Statistics (62-XX); Computer science (68-XX)
Plant-mPLoc Software Authors: Chou, K. -C.; Shen, H. -B. Cited in: 26 Publications (2010–2019) Related Software: Cell-PLoc; Euk-mPLoc; iLoc-Euk; iLoc-Virus; GPCR-2L; iLoc-Gpos; … Main Fields: Statistics (62-XX); Computer science (68-XX); Operations research, mathematical programming (90-XX)
GNA Software Authors: Hidde de Jong, Johannes Geiselmann, Céline Hernandez, Michel Page Cited in: 25 Publications (2006–2021) Related Software: BIOCHAM; KEGG; Celldesigner; RoVerGeNe; DiVinE; Ginsim; … Main Fields: Mathematical logic and foundations (03-XX); Ordinary differential equations (34-XX); Computer science (68-XX)
BlenX Software Authors: Lorenzo Dematté; Corrado Priami; Alessandro Romanel Cited in: 18 Publications (2008–2020) Related Software: Bio-PEPA; PRISM; PEPA; BioNetGen; LBS; BioModels; … Main Fields: Mathematical logic and foundations (03-XX); Category theory; homological algebra (18-XX); Computer science (68-XX)
MESSI Software Authors: Mercedes Pérez Millán, Alicia Dickenstein Cited in: 22 Publications (2018–2022) Related Software: REDLOG; QEPCAD; Maple; Binomials.m2; DAISY; Mathematica; … Main Fields: Commutative algebra (13-XX); Algebraic geometry (14-XX); Ordinary differential equations (34-XX)
PyDSTool Software Authors: Clewley RH, Sherwood WE, LaMar MD, Guckenheimer JM Cited in: 19 Publications (2012–2022) Related Software: MATCONT; Matlab; AUTO; DDE-BIFTOOL; Python; XPPAUT; … Main Fields: Ordinary differential equations (34-XX); Partial differential equations (35-XX); Dynamical systems and ergodic theory (37-XX)
Scicos Software Authors: INRIA Cited in: 19 Publications (2006–2019) Related Software: Scilab; ScicosLab; FreeFem++; Modelica; Chaos; GPOPS; … Main Fields: Dynamical systems and ergodic theory (37-XX); Numerical analysis (65-XX); Computer science (68-XX)
ESPResSo Software Authors: Limbach, H.-J.; Arnold, A.; Mann, B. A.; Holm, C Cited in: 15 Publications (2008–2021) Related Software: NAMD; Gromacs; ESPResSo++; AdResS; MMM2D; Python; … Main Fields: Numerical analysis (65-XX); Mechanics of deformable solids (74-XX); Fluid mechanics (76-XX)
GenSSI Software Authors: Chis O, Banga J, Balsa-Canto E Cited in: 18 Publications (2013–2023) Related Software: DAISY; SIAN; COMBOS; AMIGO; ObservabilityTest; BLAD; … Main Fields: Ordinary differential equations (34-XX); Dynamical systems and ergodic theory (37-XX); Statistics (62-XX)
sbtoolbox Software Authors: Henning Schmidt; Mats Jirstrand Cited in: 12 Publications (2009–2019) Related Software: Matlab; SBML-SAT; libSBML; Sbmltoolbox; SymPy; Python; … Main Fields: Ordinary differential equations (34-XX); Dynamical systems and ergodic theory (37-XX); Calculus of variations and optimal control; optimization (49-XX)
AIFS Software Authors: Koci\'c, Ljubi\v{s}a M. Cited in: 14 Publications (2001–2011) Related Software: – Main Fields: Mathematical logic and foundations (03-XX); Measure and integration (28-XX); Dynamical systems and ergodic theory (37-XX)
DESMOND Software Authors: D. E. Shaw Research Cited in: 8 Publications (2010–2022) Related Software: Gromacs; NAMD; LAMMPS; AMBER; CHARMM; CUDA; … Main Fields: Number theory (11-XX); Numerical analysis (65-XX); Statistical mechanics, structure of matter (82-XX)
NFsim Software Authors: Sneddon MW, Faeder JR, Emonet T Cited in: 13 Publications (2011–2022) Related Software: BioNetGen; ERODE; GitHub; LBS; Bio-PEPA; BIOCHAM; … Main Fields: Combinatorics (05-XX); Ordinary differential equations (34-XX); Computer science (68-XX)
VTDIRECT95 Software Authors: Jian He; Layne T. Watson; Masha Sosonkina Cited in: 13 Publications (2009–2022) Related Software: DIRECT; NOMAD; DFL; MultiMin; MrDIRECT; QNSTOP; … Main Fields: Numerical analysis (65-XX); Computer science (68-XX); Operations research, mathematical programming (90-XX)
jHoles Software Authors: Binchi, Jacopo; Merelli, Emanuela; Rucco, Matteo; Petri, Giovanni; Vaccarino, Francesco Cited in: 12 Publications (2014–2022) Related Software: javaPlex; GitHub; PHAT; Perseus; Gudhi; Holes; … Main Fields: Combinatorics (05-XX); Algebraic topology (55-XX); Statistics (62-XX)
RAMAS Software Authors: Kloetzer, Marius; Belta, Calin Cited in: 12 Publications (2006–2013) Related Software: RoVerGeNe; HyTech; PHAVer; SpaceEx; HSolver; Benchmarks; … Main Fields: Numerical analysis (65-XX); Computer science (68-XX); Operations research, mathematical programming (90-XX)
SW1PerS Software Authors: J. A. Perea, A. Deckard, S. B. Haase, J. Harer Cited in: 12 Publications (2015–2022) Related Software: TDA; Ripser; javaPlex; Persistence Landscape; PersistenceImages; TopologyNet; … Main Fields: Dynamical systems and ergodic theory (37-XX); Algebraic topology (55-XX); Statistics (62-XX)
AMIGO Software Authors: Eva Balsa-Canto; Julio R. Banga Cited in: 7 Publications (2015–2021) Related Software: Data2Dynamics; PESTO; COPASI; R; pyPESTO; PEtab; … Main Fields: Ordinary differential equations (34-XX); Numerical analysis (65-XX); Operations research, mathematical programming (90-XX)
Bio-SPICE Software Authors: Garvey TD, Lincoln P, Pedersen CJ et al Cited in: 8 Publications (2005–2014) Related Software: COPASI; BioModels; Taverna; GEPASI; KEGG; Celldesigner; … Main Fields: History and biography (01-XX); Numerical analysis (65-XX); Computer science (68-XX)
MILA Software Authors: Dasgupta, D.; Yu, S.; Majumdar, N.S. Cited in: 9 Publications (2003–2012) Related Software: ABC Main Fields: Computer science (68-XX); Quantum theory (81-XX); Statistical mechanics, structure of matter (82-XX)
CP2K Software Authors: https://sourceforge.net/p/cp2k/_members/; Hutter J., Iannuzzi M., Schiffmann F., VandeVondele J. Cited in: 5 Publications (2016–2023) Related Software: Quantum Espresso; AdResS; NWChem; TensorFlow; GAUSSIAN; ASE; … Main Fields: Numerical analysis (65-XX); Computer science (68-XX); Mechanics of deformable solids (74-XX)
FisPro Software Authors: Guillaume, S.; Charnomodic, B. Cited in: 4 Publications (2013–2018) Related Software: FURIA; UCI-ml; C4.5; clusfind; BMDP; Silhouettes; … Main Fields: Statistics (62-XX); Computer science (68-XX); Operations research, mathematical programming (90-XX)
MGS Software Authors: Giavitto, J.-L.; Michel, O. Cited in: 9 Publications (2001–2016) Related Software: HOCL; NESL; Maude; HexaChord; PORGY; BioSPI; … Main Fields: General and overarching topics; collections (00-XX); Combinatorics (05-XX); Computer science (68-XX)
ABC-SysBio Software Authors: Liepe, J., Barnes, C., Cule, E., Erguler, K., Kirk, P., Toni, T., Stumpf, M. P. H. Cited in: 6 Publications (2012–2022) Related Software: BioBayes; astroABC; EasyABC; SciPy; Python; BCM; … Main Fields: Probability theory and stochastic processes (60-XX); Statistics (62-XX); Numerical analysis (65-XX)
ADAM Software Authors: Hinkelmann F, Brandon M, Guang B, McNeill R, Blekherman G, Veliz-Cuba A, Laubenbacher R Cited in: 8 Publications (2011–2020) Related Software: Ginsim; Macaulay2; BoolNet; SNOOPY; Polynome; multistatepdscontrol; … Main Fields: Algebraic geometry (14-XX); Linear and multilinear algebra; matrix theory (15-XX); Biology and other natural sciences (92-XX)
Bubbles Software Authors: Aapo Hyvärinen; Jarmo Hurri; Jaakko Väyrynen Cited in: 8 Publications (2005–2014) Related Software: LIBSVM; MNIST; sfa; R; JPEG2000 Main Fields: Computer science (68-XX); Game theory, economics, finance, and other social and behavioral sciences (91-XX); Biology and other natural sciences (92-XX)
MCINTYRE Software Authors: Riguzzi, F. Cited in: 7 Publications (2015–2019) Related Software: ProbLog; PITA; CP-logic; PRISM; cplint; SWI-Prolog; … Main Fields: Computer science (68-XX)
MeCoSim Software Authors: Pérez-Hurtado, I.; Valencia-Cabrera, L.; Pérez-Jiménez, M. J.; Colomer, M. A.; Riscos-Núñez, A. Cited in: 8 Publications (2012–2020) Related Software: P-Lingua; PMCGPU; CuSNP; gCol; jSpin; SPIN; … Main Fields: Combinatorics (05-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)
MultiLoc2 Software Authors: Blum, T.; Briesemeister, S.; Kohlbacher, O. Cited in: 6 Publications (2011–2014) Related Software: MultiLoc; Cell-PLoc; iLoc-Euk; Euk-PLoc; Euk-mPLoc; Plant-mPLoc; … Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)
PseKNC-General Software Authors: Chen, W.; Zhang, X.; Brooker, J.; Lin, H.; Zhang, L.; Chou, K.C. Cited in: 8 Publications (2015–2019) Related Software: iRSpot-PseDNC; Pse-in-One; repDNA; PseKNC; PseAAC-General; PseAAC-Builder; … Main Fields: Biology and other natural sciences (92-XX)
BioShape Software Authors: Buti, F.; Cacciagrano, D.; Corradini, F.; Merelli, E.; Tesei, L.; Pani, M. Cited in: 4 Publications (2010–2014) Related Software: Bio-PEPA; BioNetGen; BioAmbient Machine; PathSim; MCELL; PEPA; … Main Fields: Dynamical systems and ergodic theory (37-XX); Convex and discrete geometry (52-XX); Computer science (68-XX)
PANOW Software Authors: Vergne, Nicolas; Abadi, Miguel Cited in: 7 Publications (2008–2022) Related Software: – Main Fields: Dynamical systems and ergodic theory (37-XX); Probability theory and stochastic processes (60-XX); Biology and other natural sciences (92-XX)
PoCaB Software Authors: Samal, Satya Swarup; Errami, Hassan; Weber, Andreas Cited in: 7 Publications (2012–2015) Related Software: BioModels; polymake; z3; KEGG; REDLOG; SDeval; … Main Fields: Algebraic geometry (14-XX); Ordinary differential equations (34-XX); Numerical analysis (65-XX)
SABRE Software Authors: Didier, F., Henzinger, T.A., Mateescu, M., Wolf, V Cited in: 5 Publications (2011–2016) Related Software: PRISM; MARCIE; Bio-PEPA; SBML Test Suite; INFAMY; MRMC; … Main Fields: Probability theory and stochastic processes (60-XX); Numerical analysis (65-XX); Computer science (68-XX)
STOCHSIMGPU Software Authors: Klingbeil, G.; Erban, R.; Giles, M.; Maini, P. K. Cited in: 6 Publications (2012–2022) Related Software: BayesDA; MLMCandMultifidelityForABC; AABC; Smoldyn; MesoRD; STEPS; … Main Fields: Partial differential equations (35-XX); Probability theory and stochastic processes (60-XX); Statistics (62-XX)
AgentCell Software Authors: Thierry Emonet, Charles M. Macal, Michael J. North, Charles E. Wickersham, Philippe Cluzel Cited in: 6 Publications (2007–2020) Related Software: BacSim; FreeFem++; STOCHSIM Main Fields: Partial differential equations (35-XX); Biology and other natural sciences (92-XX)
Cell Illustrator Software Authors: Matsuno, Hiroshi; Nagasaki, Masao; Miyano, Satoru; University of Tokyo. Cited in: 5 Publications (2009–2018) Related Software: SNOOPY; SUNDIALS; CPN Assistant; gff2ps; HAPLORE; GRIL; … Main Fields: General and overarching topics; collections (00-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)
HysterSoft Software Authors: Dimian, Mihai; Andrei, Petru Cited in: 6 Publications (2014–2022) Related Software: GitHub; KronFit Main Fields: Dynamical systems and ergodic theory (37-XX); Mechanics of particles and systems (70-XX); Mechanics of deformable solids (74-XX)
Polynome Software Authors: Dimitrova, Elena; García-Puente, Luis David; Hinkelmann, Franziska; Jarrah, Abdul S.; Laubenbacher, Reinhard; Stigler, Brandilyn; Stillman, Michael; Vera-Licona, Paola Cited in: 6 Publications (2010–2017) Related Software: ADAM; Macaulay2; Ginsim; SageMath; SNOOPY; TIGRESS Main Fields: Statistics (62-XX); Numerical analysis (65-XX); Computer science (68-XX)
ProMoT Software Authors: F Tränkle, M Zeitz, M Ginkel; Waschler, Roland; Angeles-Palacios, Odon; Ginkel, Martin; Kienle, Achim Cited in: 5 Publications (2000–2021) Related Software: TABASCO; lpSolve; SUNDIALS; SciPy; SynBioSS; BioJADE; … Main Fields: General and overarching topics; collections (00-XX); History and biography (01-XX); Partial differential equations (35-XX)
SQUAD Software Authors: Akram Méndez; Carlos Ramírez; Mauricio Pérez Martínez; Luis Mendoza Cited in: 5 Publications (2010–2021) Related Software: miRNet; Jimena; ClueGO; gcrma; RedeR; STRINGdb; … Main Fields: Biology and other natural sciences (92-XX); Systems theory; control (93-XX)
SReach Software Authors: Q. Wang, P. Zuliani, S. Kong, S. Gao, E. M. Clarke Cited in: 5 Publications (2015–2022) Related Software: ProbReach; FAUST2; StocHy; AMYTISS; dReal; SCOTS; … Main Fields: Mathematical logic and foundations (03-XX); Computer science (68-XX); Operations research, mathematical programming (90-XX)
TRNSYS Software Authors: Thermal Energy System Specialists, LLC Cited in: 5 Publications (2001–2019) Related Software: Matlab; EnergyPlus Main Fields: Numerical analysis (65-XX); Fluid mechanics (76-XX); Classical thermodynamics, heat transfer (80-XX)
Ace Software Authors: Barton, J.P., De Leonardis E., Coucke A., Cocco S. Cited in: 5 Publications (2016–2021) Related Software: DeepTCR; repgenHMM; OLGA; Alakazam; Change-O; SoDA2; … Main Fields: Quantum theory (81-XX); Statistical mechanics, structure of matter (82-XX); Biology and other natural sciences (92-XX)
Bio-PEPAd Software Authors: Caravagna, Giulio; Hillston, Jane Cited in: 4 Publications (2012–2015) Related Software: Bio-PEPA; LBS; PRISM; BIOCHAM; UMDES; BlenX; … Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)
Bioclipse Software Authors: Spjuth O, Alvarsson J, Berg A, Eklund M, Kuhn S, Masak C, Torrance G, Wagener J, Willighagen E, Steinbeck C, Wikberg J. Cited in: 0 Publications Related Software: CDK; Taverna; BioMOBY; BIRT; Screensaver; Spring; … Main Fields: –
MARCO Software Authors: Berman, Spring; Halász, Ádám; Kumar, Vijay Cited in: 5 Publications (2007–2018) Related Software: HyTech; PHAVer; Flow*; SpaceEx; MiniSat; nuXmv; … Main Fields: Ordinary differential equations (34-XX); Computer science (68-XX); Mechanics of deformable solids (74-XX)
PLUMED Software Authors: Massimiliano Bonomi, Davide Branduardi, Giovanni Bussi, Carlo Camilloni, Davide Provasi, Paolo Raiteri, Davide Donadio, Fabrizio Marinelli, Fabio Pietrucci, Ricardo A. Broglia, Michele Parrinello Cited in: 1 Publication (2017) Related Software: Gromacs; NAMD; AMBER; VMD; OpenMM; DESMOND; … Main Fields: Fluid mechanics (76-XX); Biology and other natural sciences (92-XX)
SensSB Software Authors: Rodriguez-Fernandez, M., Banga, J.R. Cited in: 4 Publications (2012–2020) Related Software: Matlab; SBML-SAT; COPASI; sbtoolbox; SPSens; StochSens; … Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX); Systems theory; control (93-XX)
SING Software Authors: Raffaele Di Natale, Alfredo Ferro, Rosalba Giugno, Misael Mongiovì, Alfredo Pulvirenti, Dennis Shasha Cited in: 4 Publications (2014–2018) Related Software: GraphGrep; SAGA; GADDI; SAPPER; Fg-index; TALE; … Main Fields: Combinatorics (05-XX); Statistics (62-XX); Computer science (68-XX)
Apbsmem Software Authors: Callenberg, K.M.; Choudhary, O.P.; de Forest, G.L.; Gohara, D.W.; Baker, N.A.; Grabe, M. Cited in: 4 Publications (2013–2018) Related Software: MIBPB; APBS; tabipb; TABI; TMSmesh; CHARMM; … Main Fields: Numerical analysis (65-XX); Computer science (68-XX); Optics, electromagnetic theory (78-XX)
Biocellion Software Authors: Kang, S., Kahan, S., McDermott, J., Flann, N., Shmulevich, I. Cited in: 3 Publications (2020–2021) Related Software: PhysiCell; Chaste; CellSys; Morpheus; Microvessel Chaste; EmbryoMaker; … Main Fields: Partial differential equations (35-XX); Numerical analysis (65-XX); Biology and other natural sciences (92-XX)
C-GRAAL Software Authors: Vesna Memisevic; Natasa Przulj Cited in: 4 Publications (2013–2022) Related Software: GEDEVO; SPINAL; CVX; SDPT3; Algorithm 97; PAML; … Main Fields: Combinatorics (05-XX); Computer science (68-XX); Operations research, mathematical programming (90-XX)
COBRApy Software Authors: Ali Ebrahim, Joshua A Lerman, Bernhard O Palsson, Daniel R Hyduke Cited in: 3 Publications (2015–2020) Related Software: CPLEX; fnyzer; GLPK; Pyomo; Gurobi; METRADE; … Main Fields: Computer science (68-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)
EPE Software Authors: Demin, Oleg; Goryanin, Igor Cited in: 4 Publications (2009–2015) Related Software: DBSolve Main Fields: Combinatorics (05-XX); Statistics (62-XX); Statistical mechanics, structure of matter (82-XX)
MMG Software Authors: Sanguinetti G, Noirel J, Wright PC Cited in: 1 Publication (2019) Related Software: Matrix eQTL; SIRENE; FATODE; NOMAD; GeneNetWeaver; Path2Models; … Main Fields: Biology and other natural sciences (92-XX)
OPERAS Software Authors: Stamatopoulou, Ioanna; Kefalas, Petros; Gheorghe, Marian Cited in: 2 Publications (2009–2017) Related Software: NetLogo Main Fields: Computer science (68-XX); Operations research, mathematical programming (90-XX); Game theory, economics, finance, and other social and behavioral sciences (91-XX)
ParaKMeans Software Authors: Kraj P, Sharma A, Garge N, Podolsky R, Richard A, Mcindoe RA Cited in: 3 Publications (2013–2015) Related Software: clusfind; AlexNet; ImageNet; Hadoop; MapReduce; Algorithm 97; … Main Fields: Linear and multilinear algebra; matrix theory (15-XX); Statistics (62-XX); Computer science (68-XX)
Psim Software Authors: Bianco, L., Manca, V., Marchetti, L., Petterlini, M. Cited in: 4 Publications (2007–2013) Related Software: P-Lingua; pLinguaCore; gnuplot; BioSPI; PRISM Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)
TinkerCell Software Authors: Deepak Chandran, Frank T. Bergmann, Herbert M. Sauro Cited in: 2 Publications (2014–2015) Related Software: TABASCO; lpSolve; SUNDIALS; SciPy; ProMoT; SynBioSS; … Main Fields: Ordinary differential equations (34-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)
Anthill Software Authors: Babaoglu, O., Meling, H., Montresor, A. Cited in: 1 Publication (2007) Related Software: Chord; OMNet++ Main Fields: Computer science (68-XX)
BiNoM Software Authors: Andrei Zinovyev; Eric Viara; Laurence Calzone; Emmanuel Barillot Cited in: 2 Publications (2012–2015) Related Software: Pathway Commons; CellPublisher; Ginsim; elmap Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)
BioModelAnalyzer Software Authors: Ahmed, Zara; Benque, David; Berezin, Sergey; Dahl, Anna Caroline E.; Fisher, Jasmin; Hall, Benjamin A.; Ishtiaq, Samin; Nanavati, Jay; Piterman, Nir; Riechert, Maik; Skoblov, Nikita Cited in: 2 Publications (2017–2021) Related Software: Aeon; ATLANTIS; Cytoscape.js; PyBoolNet; ASSA-PBN; Ginsim; … Main Fields: Mathematical logic and foundations (03-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)
Browndye Software Authors: Huber, Gary A.; McCammon, J.Andrew Cited in: 3 Publications (2010–2013) Related Software: Matlab; Fastcap; AFMPB; VMD; Macrodox; SDA; … Main Fields: Harmonic analysis on Euclidean spaces (42-XX); Numerical analysis (65-XX); Fluid mechanics (76-XX)
CMBSlib Software Authors: Sylvian Soliman, François Fages Cited in: 3 Publications (2005–2008) Related Software: BIOCHAM; KEGG; Cellerator; CSPLib Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX); Systems theory; control (93-XX)
cPath Software Authors: Ethan G Cerami, Gary D Bader, Benjamin E Gross, Chris Sander Cited in: 1 Publication (2013) Related Software: TRANSFAC; KEGG; CellSys; SBRML; BioModels; CellML; … Main Fields: Dynamical systems and ergodic theory (37-XX); Biology and other natural sciences (92-XX)
deBInfer Software Authors: Philipp H Boersch-Supan, Leah R Johnson Cited in: 2 Publications (2018–2021) Related Software: R; Stan; deSolve; devtools; PBSddesolve; pomp; … Main Fields: Ordinary differential equations (34-XX); Statistics (62-XX); Biology and other natural sciences (92-XX)
GemCell Software Authors: Amir-Kroll, Hila; Sadot, Avital; Cohen, Irun R.; Harel, David Cited in: 2 Publications (2008) Related Software: Matlab; BIOCHAM Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)
MI-GRAAL Software Authors: Oleksii Kuchaiev; Natasa Przulj Cited in: 2 Publications (2013–2020) Related Software: IsoRankN; IsoRank; Natalie; GHOST; NABEECO; SPINAL; … Main Fields: Combinatorics (05-XX); Statistics (62-XX); Computer science (68-XX)
MoVisPP Software Authors: Chen, Ming; Hariharaputran, Sridhar; Hofestädt, Ralf; Kormeier, Benjamin Cited in: 3 Publications (2011) Related Software: SNOOPY; COPASI; Virtual Cell; VisANT; Bio-SPICE; KEGG; … Main Fields: Statistics (62-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)
NLTOOLBOX Software Authors: Testylier, Romain; Dang, Thao Cited in: 2 Publications (2013–2017) Related Software: SpaceEx; Ariadne; Isabelle/HOL; JuliaReach; Python; DaDRA; … Main Fields: Computer science (68-XX); Systems theory; control (93-XX)
PhyloWS Software Authors: Le, Tiep; Nguyen, Hieu; Pontelli, Enrico; Son, Tran Cao Cited in: 2 Publications (2012–2015) Related Software: SiFit; BitPhylogeny; Quartets MaxCut; Open-WBO; WASP; Sat4j; … Main Fields: Computer science (68-XX); Biology and other natural sciences (92-XX)
PICS Software Authors: Zhang, Xuekui; Robertson, Gordon; Krzywinski, Martin; Ning, Kaida; Droit, Arnaud; Jones, Steven; Gottardo, Raphael Cited in: 3 Publications (2011–2015) Related Software: nucleoSim; PuFFIN; nucleR; consensusSeekeR; VennDiagram; FindPeaks; … Main Fields: Statistics (62-XX); Numerical analysis (65-XX); Biology and other natural sciences (92-XX)
PRISM-PSY Software Authors: Češka, M., Pilař, P., Paoletti, N., Brim, L., Kwiatkowska, M. Cited in: 3 Publications (2018) Related Software: PRISM; PROPhESY; Python; Numba; PPL; Uppaal; … Main Fields: Mathematical logic and foundations (03-XX); Probability theory and stochastic processes (60-XX); Computer science (68-XX)
PyBioNetFit Software Authors: Mitra, ED; Suderman, R.; Colvin, J.; Ionkov, A.; Hu, A.; Sauro, HM; Posner, RG; Hlavacek, WS Cited in: 1 Publication (2020) Related Software: COPASI; AMIGO; tellurium; MEIGO; BioNetGen; Data2Dynamics; … Main Fields: Dynamical systems and ergodic theory (37-XX); Numerical analysis (65-XX)
PyCogent Software Authors: Knight R, Maxwell P, Birmingham A, Carnes J, Caporaso JG, Easton BC, et al. Cited in: 1 Publication (2014) Related Software: Python; bioperl; PyMOL; Biopython; Omics Pipe; Anaconda; … Main Fields: Statistics (62-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)
pyPESTO Software Authors: Schmiester, Leonard; Weindl, Daniel; Hasenauer, Jan Cited in: 1 Publication (2020) Related Software: AMIGO; Data2Dynamics; PEtab; COPASI; PyBioNetFit; PESTO; … Main Fields: Dynamical systems and ergodic theory (37-XX); Numerical analysis (65-XX)
PySCeS Software Authors: Brett Oliver, Johann Rohwer, Jannie Hofmeyr Cited in: 1 Publication (2006) Related Software: SUNDIALS; SBW; LibSBMLSim; RunBioSimulations; DYVIPAC; SOSlib; … Main Fields: Biology and other natural sciences (92-XX)
Simbody Software Authors: Seth, Ajay; Sherman, Michael; Eastman, Peter; Delp, Scott Cited in: 2 Publications (2010–2015) Related Software: OpenSim; Puppeteer; Simox; RBDL; Matlab; Octave; … Main Fields: Mechanics of particles and systems (70-XX); Biology and other natural sciences (92-XX)
SwisTrack Software Authors: Lochmatter, T., Roduit, P., Cianci, C., Correll, N., Jacot, J., Martinoli, A. Cited in: 3 Publications (2008–2016) Related Software: COPL_DSDP Main Fields: Statistics (62-XX); Numerical analysis (65-XX); Computer science (68-XX)
SYSBIONS Software Authors: Johnson, R, Kirk, P, Stumpf, M P Cited in: 2 Publications (2018–2019) Related Software: BioBayes; abc; BCM; PyMC; ABC-SysBio; SciPy; … Main Fields: Statistics (62-XX); Numerical analysis (65-XX); Biology and other natural sciences (92-XX)
VCell Software Authors: Loew, L.; et.al. Cited in: 3 Publications (2013–2021) Related Software: Python; Matlab; Dynamical Systems Toolbox; PyCont; PySB; COPASI; … Main Fields: Biology and other natural sciences (92-XX)
ADMC++ Software Authors: Phipps, Eric; Casey, Richard; Guckenheimer, John Cited in: 2 Publications (2006–2007) Related Software: Matlab Main Fields: Dynamical systems and ergodic theory (37-XX); Numerical analysis (65-XX); Biology and other natural sciences (92-XX)
ANDy Software Authors: Franck Delaplace, Cinzia Di Giusto, Jean-Louis Giavitto, Hanna Klaudel Cited in: 1 Publication (2018) Related Software: Charlie; SNOOPY; SNAKES Main Fields: Computer science (68-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)
AutoClass@IJM Software Authors: Achcar, Fiona; Camadro, Jean-Michel; Mestivier, Denis Cited in: 1 Publication (2018) Related Software: ZIFA; AutoClass; t-SNE; SpectralCAT; BayesLCA Main Fields: Statistics (62-XX); Computer science (68-XX)
BioGrapher Software Authors: Viswanathan, Rama; Liang, Sijia; Yang, Yang; Jungck, John R. Cited in: 2 Publications (2015–2016) Related Software: JavaBENZER; Excel; VBA; Visual Basic; Graphviz Main Fields: Combinatorics (05-XX); Computer science (68-XX); Biology and other natural sciences (92-XX)
BioPreDyn-bench Software Authors: Villaverde AF, Henriques D, Smallbone K, Bongard S, Schmid J, Cicin-Sain D, Crombach A, Saez-Rodriguez J, Mauch K, Balsa-Canto E, Mendes P, Jaeger J, Banga JR Cited in: 2 Publications (2019–2021) Related Software: PESTO; Data2Dynamics; SUNDIALS; EvA2; Qlopt; AMIGO; … Main Fields: Ordinary differential equations (34-XX); Operations research, mathematical programming (90-XX); Biology and other natural sciences (92-XX)
BioSimulator.jl Software Authors: Alfonso Landeros, Timothy Stutz, Kevin L. Keys, Alexander Alekseyenko, Janet S. Sinsheimer, Kenneth Lange, Mary Sehl Cited in: 0 Publications Related Software: DifferentialEquations.jl; Julia; DiffEqFlux; Flux; GR Framework; epinet; … Main Fields: –
CellPublisher Software Authors: L.A. Flórez, C.R. Lammers, R. Michna, J. Stülke Cited in: 1 Publication (2015) Related Software: Pathway Commons; BiNoM; Ginsim; elmap; Google Maps API; GBrowse; … Main Fields: Statistics (62-XX); Biology and other natural sciences (92-XX)