2022 docs update

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

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