diff --git a/README.md b/README.md index 1f7bf476f..d9ef6cb31 100644 --- a/README.md +++ b/README.md @@ -11,22 +11,14 @@ This software was started at University College London and has since been developed by a large number of people (see AUTHORS). It is open source under the LGPL license (see LICENSE). -Key publications: +Please see the [doc](doc) folder for more details. -- M.D. Mazzeo & P.V. Coveney, "HemeLB: A high performance parallel - lattice-Boltzmann code for large scale fluid flow in complex - geometries", Comput. Phys. Commun. (2008) - https://doi.org/10.1016/j.cpc.2008.02.013 +Key features: -- D. Groen, J. Hetherington, H.B. Carver, R.W. Nash, M.O. Bernabeu, - "Analysing and modelling the performance of the HemeLB - lattice-Boltzmann simulation environment", J. Comput. Sci. (2013). - https://doi.org/10.1016/j.jocs.2013.03.002 - -- R.W. Nash, H.B. Carver, M.O. Bernabeu, J. Hetherington, D. Groen, T. - Krüger, P.V. Coveney, "Choice of boundary condition for - lattice-Boltzmann simulation of moderate-Reynolds-number flow in - complex domains", Phys. Rev. E (2014). - https://doi.org/10.1103/PhysRevE.89.023303 - -Please see the [doc] folder for more details. +- highly scalable +- simulations in complex geometry +- multiple LB velocity sets (D3Q15, D3Q19, D3Q27) +- choice of fluid model (Newtonian via LBGK, MRT, Carreau-Yasuda, + Casson, Truncated power law) +- various solid wall boundary conditions (SBB, BFL, GZS, JY) +- inlet/outlet boundary conditions by pressure or velocity diff --git a/doc/README.md b/doc/README.md index 7991fe467..39c726a52 100644 --- a/doc/README.md +++ b/doc/README.md @@ -21,3 +21,60 @@ A typical workflow with HemeLB consists of four steps: [Developer documentation](dev) +# Publications + +## Key code publications + +- R.W. Nash, H.B. Carver, M.O. Bernabeu, J. Hetherington, D. Groen, T. + Krüger, P.V. Coveney, "Choice of boundary condition for + lattice-Boltzmann simulation of moderate-Reynolds-number flow in + complex domains", Phys. Rev. E (2014). + https://doi.org/10.1103/PhysRevE.89.023303 + +- D. Groen, J. Hetherington, H.B. Carver, R.W. Nash, M.O. Bernabeu, + "Analysing and modelling the performance of the HemeLB + lattice-Boltzmann simulation environment", J. Comput. Sci. (2013). + https://doi.org/10.1016/j.jocs.2013.03.002 + +- M.D. Mazzeo & P.V. Coveney, "HemeLB: A high performance parallel + lattice-Boltzmann code for large scale fluid flow in complex + geometries", Comput. Phys. Commun. (2008) + https://doi.org/10.1016/j.cpc.2008.02.013 + + +## Papers using HemeLB + +- Q. Zhou, K. Schirrmann, E. Doman, Q. Chen, N. Singh, P. Ravi Selvaganapathy, + M.O. Bernabeu, O.E. Jensen, A. Juel, I.L. Chernyavsky, T. Krüger. + Red blood cell dynamics in extravascular biological tissues modelled as + canonical disordered porous media. Interface Focus 12, 20220037 (2022). + https://dx.doi.org/10.1098/rsfs.2022.0037 + +- Q. Zhou, T. Perovic, I. Fechner, L.T. Edgar, P.R. Hoskins, H. Gerhardt, + T. Krüger, M.O. Bernabeu. Association between erythrocyte dynamics and + vessel remodelling in developmental vascular networks. + J. R. Soc. Interface 18, 20210113 (2021). + https://doi.org/10.1098/rsif.2021.0113 + +- R. Enjalbert, D. Hardman, T Krüger, M.O. Bernabeu. Compressed vessels + bias red blood cell partitioning at bifurcations in a hematocrit-dependent + manner: Implications in tumor blood flow. PNAS 118, e2025236118 (2021). + https://doi.org/10.1073/pnas.2025236118 + +- Q. Zhou, J. Fidalgo, M.O. Bernabeu, M.S.N. Oliveira, T. Krüger. + Emergent cell-free layer asymmetry and biased haematocrit partition + in a biomimetic vascular network of successive bifurcations. + Soft Matter 17, 3619-3633 (2021). + https://doi.org/10.1039/D0SM01845G + +- M.O. Bernabeu, J. Köry, J.A. Grogan, B. Markelc, A.B. Ricol, M. d’Avezac, + R. Enjalbert, J. Kaeppler, N. Daly, J. Hetherington, T. Krüger, P.K. Maini, + J.M. Pitt-Francis, R.J. Muschel, T. Alarcón, H.M. Byrne. Abnormal morphology + biases haematocrit distribution in tumour vasculature and contributes to + heterogeneity in tissue oxygenation. PNAS 117, 27811-27819 (2020). + https://doi.org/10.1073/pnas.200777011 + +- Q. Zhou, J. Fidalgo, L. Calvi, M.O. Bernabeu, P.R. Hoskins, M.S.N. Oliveira, + T. Krüger. Spatiotemporal Dynamics of Dilute Red Blood Cell Suspensions + in Low-Inertia Microchannel Flow. Biophys. J. 118, 2561-2573 (2020). + https://doi.org/10.1016/j.bpj.2020.03.019