October 2011 Archives by thread

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Starting: Sat Oct 1 09:09:26 CEST 2011
Ending: Mon Oct 31 23:42:51 CET 2011
Messages: 763

• [gmx-users] NVT Equilibration getting blown up   Ravi Kumar Venkatraman
  • [gmx-users] NVT Equilibration getting blown up   Mark Abraham
• [gmx-users] Regarding 1-d free energy profile from g_sham   bipin singh
  • [gmx-users] Regarding 1-d free energy profile from g_sham   bipin singh
    • [gmx-users] Regarding 1-d free energy profile from g_sham   Justin A. Lemkul
• [gmx-users] pull code problem: between protofilaments   chris.neale at utoronto.ca
  • [gmx-users] pull code problem: between protofilaments   Shilpi Chaurasia
• [gmx-users] Adjust the screen's output frequency   杜波
  • [gmx-users] Adjust the screen's output frequency   David van der Spoel
• [gmx-users] g_clustsize and temp.xvg   Dr. Vitaly V. Chaban
  • [gmx-users] g_clustsize and temp.xvg   Mark Abraham
• [gmx-users] About the GROMOS96 parameters files   intra\sa175950
  • [gmx-users] About the GROMOS96 parameters files   Justin A. Lemkul
• [gmx-users] analyzing protein conformation stability   Sajad Ahrari
• [gmx-users] RMSD bonds and angles   ahmet yıldırım
  • [gmx-users] RMSD bonds and angles   Mark Abraham
    • [gmx-users] RMSD bonds and angles   ahmet yıldırım
      • [gmx-users] RMSD bonds and angles   ahmet yıldırım
      • [gmx-users] RMSD bonds and angles   Mark Abraham
      • [gmx-users] RMSD bonds and angles   ahmet yıldırım
      • [gmx-users] RMSD bonds and angles   Tsjerk Wassenaar
• [gmx-users] analyzing protein conformation stability   Mark Abraham
• [gmx-users] Regarding 1-d free energy profile from g_sham   Justin A. Lemkul
• [gmx-users] RE:How to change the screen's output frequency?   杜波
  • [gmx-users] RE:How to change the screen's output frequency?   Justin A. Lemkul
• [gmx-users] RE:How to change the screen's output frequency?   chris.neale at utoronto.ca
• [gmx-users] About the GROMOS96 parameters files   intra\sa175950
• [gmx-users] make_ndx and rdf   Molecular Dynamics
  • [gmx-users] make_ndx and rdf   Justin A. Lemkul
    • [gmx-users] make_ndx and rdf   oguz gurbulak
      • [gmx-users] make_ndx and rdf   Justin A. Lemkul
• [gmx-users] MD with membrane protein   elisa carli
  • [gmx-users] MD with membrane protein   Justin A. Lemkul
  • [gmx-users] MD with membrane protein   lina
• [gmx-users] Free Energy Question   Fabian Casteblanco
• [gmx-users] heteroatom not to be a ligand   ahmet yıldırım
  • [gmx-users] heteroatom not to be a ligand   Justin A. Lemkul
• [gmx-users] Free Energy Question   Emanuel Birru
• [gmx-users] partial atomic charges   MARY VARUGHESE
  • [gmx-users] partial atomic charges   Mark Abraham
    • [gmx-users] partial atomic charges   MARY VARUGHESE
      • [gmx-users] partial atomic charges   Justin A. Lemkul
• [gmx-users] NVT equilibration of Ethanol in OPLSAA.   Ravi Kumar Venkatraman
  • [gmx-users] NVT equilibration of Ethanol in OPLSAA.   Mark Abraham
• [gmx-users] Creating topology with bonds over pbc   Wojciech Müller
  • [gmx-users] Creating topology with bonds over pbc   Mark Abraham
• [gmx-users] Dihedral transition times for a non-protein structure   Giulio Tesei
  • [gmx-users] Dihedral transition times for a non-protein structure   Justin A. Lemkul
    • [gmx-users] Dihedral transition times for a non-protein structure   Giulio Tesei
• [gmx-users] quick question about "direction_periodic"   Natalie Stephenson
• [gmx-users] how to install the gromacs-4.5.5 with the gpu on the linux   杜波
  • [gmx-users] how to install the gromacs-4.5.5 with the gpu on the linux   Mark Abraham
• [gmx-users] DNA dangling bond   Nuria Alegret
• [gmx-users] Getting an .edr file from trajectory   Taylor Kaplan
  • [gmx-users] Getting an .edr file from trajectory   SebastianWaltz
• [gmx-users] NVT equilibration of Ethanol in OPLSAA.   Dallas Warren
• [gmx-users] NVT equilibration of ethanol in OPLSAA ff   Ravi Kumar Venkatraman
  • [gmx-users] NVT equilibration of ethanol in OPLSAA ff   Mark Abraham
• [gmx-users] angke definition   Алексей Раевский
  • [gmx-users] angke definition   Tsjerk Wassenaar
    • [gmx-users] angke definition   Mark Abraham
• [gmx-users] NVT equilibration.   Ravi Kumar Venkatraman
• [gmx-users] protein_model_refinement   shahid nayeem
• [gmx-users] RE:Data Analysis   lloyd riggs
• [gmx-users] dihedral restraints documentation   David Mobley
• [gmx-users] RE: NVT EQUILIBRATION   Dallas Warren
• [gmx-users] Protein_model_refinement   shahid nayeem
  • [gmx-users] Protein_model_refinement   Mark Abraham
• [gmx-users] acpype generated different tip3p water paramters   Yun Shi
  • [gmx-users] acpype generated different tip3p water paramters   Alan
• [gmx-users] NVT Equilibration   Ravi Kumar Venkatraman
  • [gmx-users] NVT Equilibration   Justin A. Lemkul
• [gmx-users] Forcefield for Lipids   Saumya
  • [gmx-users] Forcefield for Lipids   Justin A. Lemkul
• [gmx-users] iron sulphur cluster   francesco oteri
  • [gmx-users] iron sulphur cluster   Mark Abraham
    • [gmx-users] iron sulphur cluster   francesco oteri
      • [gmx-users] iron sulphur cluster   Justin A. Lemkul
• [gmx-users] error while energy minimization with the protein fixed   prakash verma
  • [gmx-users] error while energy minimization with the protein fixed   Justin A. Lemkul
  • [gmx-users] error while energy minimization with the protein fixed   Mark Abraham
• [gmx-users] (no subject)   Sai Janani Ganesan
  • [gmx-users] (no subject)   Justin A. Lemkul
    • [gmx-users] (no subject)   Sai Janani Ganesan
      • [gmx-users] (no subject)   Justin A. Lemkul
      • [gmx-users] (no subject)   Sai Janani Ganesan
• [gmx-users] 1-week gromacs test at 112x12 cores   Maik Nijhuis
  • [gmx-users] 1-week gromacs test at 112x12 cores   Matthew Zwier
    • [gmx-users] 1-week gromacs test at 112x12 cores   Maik Nijhuis
• [gmx-users] (no subject)   eyem noob
• [gmx-users] CHARMM36 force field   Giovanni Mancini
  • [gmx-users] CHARMM36 force field   Thomas Piggot
• [gmx-users] Questions about dodecahedron box   zhenlong li
  • [gmx-users] Questions about dodecahedron box   Tsjerk Wassenaar
    • [gmx-users] Questions about dodecahedron box   zhenlong li
• [gmx-users] Question about Justin's Free Energy Tutorial   Fabian Casteblanco
  • [gmx-users] Question about Justin's Free Energy Tutorial   Justin A. Lemkul
    • [gmx-users] Question about Justin's Free Energy Tutorial   Michael Shirts
  • [gmx-users] Re: Question about Justin's Free Energy Tutorial   Fabian Casteblanco
• [gmx-users] CHARMM 36 force field   Giovanni Mancini
  • [gmx-users] CHARMM 36 force field   Thomas Piggot
• [gmx-users] NVT Equilibration   Dallas Warren
  • [gmx-users] NVT Equilibration   Matthew Zwier
• [gmx-users] different tip3p water parameters between AMBER and GROMACS   Yun Shi
• [gmx-users] Regarding Density   Ravi Kumar Venkatraman
• [gmx-users] Ligand scattered out of the protein   ITHAYARAJA
  • [gmx-users] Ligand scattered out of the protein   Mark Abraham
• [gmx-users] Re: atoms jumps from its native position in protein   Parthiban Marimuthu
  • [gmx-users] Re: atoms jumps from its native position in protein   Justin A. Lemkul
• [gmx-users] grompp error   Chunxia Gao
  • [gmx-users] grompp error   Mark Abraham
    • [gmx-users] grompp error   Justin A. Lemkul
• [gmx-users] order parameter   Poojari, Chetan
• [gmx-users] Gromacs: Cloud Vs. Boinc Server?   Gregory Kielian
  • [gmx-users] Gromacs: Cloud Vs. Boinc Server?   Szilárd Páll
• [gmx-users] snap shot   Nilesh Dhumal
  • [gmx-users] snap shot   Mark Abraham
  • [gmx-users] snap shot   lina
    • [gmx-users] snap shot   Nilesh Dhumal
      • [gmx-users] snap shot   Justin A. Lemkul
• [gmx-users] Center of mass: distance restrain for groups   Li, Hualin
• [gmx-users] Center of mass: distance restrain for groups   Li, Hualin
• [gmx-users] Re: topology error   ITHAYARAJA
  • [gmx-users] Re: topology error   lina
    • [gmx-users] Re: topology error   Justin A. Lemkul
• [gmx-users] error in Solvation   ITHAYARAJA
• [gmx-users] Segmentation fault   ITHAYARAJA
• [gmx-users] Regarding MKTOP   Ravi Kumar Venkatraman
• [gmx-users] A quick Q: How to get the history in make_ndx   lina
• [gmx-users] CMAP for alanine dipeptide in Charmm27 ff   César Ávila
  • [gmx-users] Re: CMAP for alanine dipeptide in Charmm27 ff   César Ávila
  • [gmx-users] CMAP for alanine dipeptide in Charmm27 ff   Jianguo Li
    • [gmx-users] CMAP for alanine dipeptide in Charmm27 ff   César Ávila
      • [gmx-users] CMAP for alanine dipeptide in Charmm27 ff   Jianguo Li
      • [gmx-users] CMAP for alanine dipeptide in Charmm27 ff   Mark Abraham
      • [gmx-users] CMAP for alanine dipeptide in Charmm27 ff   César Ávila
• [gmx-users] g_hbond   Mr Bernard Ramos
• [gmx-users] g_dipoles with net charge   李浩
• [gmx-users] Regarding Density   Dallas Warren
• [gmx-users] Ligand scattered out of the protein   Dallas Warren
• [gmx-users] "Simulation" of a crystal   auryn_valemig at libero.it
  • [gmx-users] "Simulation" of a crystal   Tsjerk Wassenaar
  • [gmx-users] "Simulation" of a crystal   Itamar Kass
• [gmx-users] FEP   Steven Neumann
• [gmx-users] FEP   Steven Neumann
  • [gmx-users] FEP   mohsen ramezanpour
    • [gmx-users] FEP   Justin A. Lemkul
      • [gmx-users] FEP   Steven Neumann
      • [gmx-users] FEP   Justin A. Lemkul
      • [gmx-users] FEP   Michael Shirts
• [gmx-users] error_in topology   balaji nagarajan
  • [gmx-users] error_in topology   Justin A. Lemkul
    • [gmx-users] topology_for_3 point model   balaji nagarajan
      • [gmx-users] topology_for_3 point model   Justin A. Lemkul
      • [gmx-users] g_hbond   Mr Bernard Ramos
      • [gmx-users] g_hbond   Justin A. Lemkul
      • [gmx-users] g_hbond   Justin A. Lemkul
• [gmx-users] RMSF calculations   Gurunath Katagi
  • [gmx-users] RMSF calculations   Tsjerk Wassenaar
• R: Re: [gmx-users] "Simulation" of a crystal   auryn_valemig at libero.it
• [gmx-users] How to obtain structures with large RMSD?   Liu, Liang
  • [gmx-users] How to obtain structures with large RMSD?   Justin A. Lemkul
    • [gmx-users] How to obtain structures with large RMSD?   Liu, Liang
      • [gmx-users] How to obtain structures with large RMSD?   Justin A. Lemkul
      • [gmx-users] How to obtain structures with large RMSD?   Liu, Liang
      • [gmx-users] How to obtain structures with large RMSD?   Tsjerk Wassenaar
      • [gmx-users] How to obtain structures with large RMSD?   Liu, Liang
      • [gmx-users] How to obtain structures with large RMSD?   Liu, Liang
      • [gmx-users] How to obtain structures with large RMSD?   KS Rotondi
      • [gmx-users] How to obtain structures with large RMSD?   Justin A. Lemkul
    • [gmx-users] How to obtain structures with large RMSD?   Tsjerk Wassenaar
      • [gmx-users] How to obtain structures with large RMSD?   Justin A. Lemkul
• [gmx-users] Re: A quick Q: How to get the history in make_ndx   Dr. Vitaly V. Chaban
• [gmx-users] Conference "Frontiers in Biomolecular Simulation"   Rainer Boeckmann
• [gmx-users] Virtual Sites in a polymer backbone   Broadbent, Richard
  • [gmx-users] Virtual Sites in a polymer backbone   Justin A. Lemkul
    • [gmx-users] Virtual Sites in a polymer backbone   Broadbent, Richard
• [gmx-users] using gromacs with an specific GCC   Nathalia Garces
  • [gmx-users] using gromacs with an specific GCC   Justin A. Lemkul
  • [gmx-users] using gromacs with an specific GCC   Szilárd Páll
• [gmx-users] problem_with_rewritting_pdb   balaji nagarajan
  • [gmx-users] problem_with_rewritting_pdb   Justin A. Lemkul
• [gmx-users] reasons for slow computation?   Yun Shi
  • [gmx-users] reasons for slow computation?   Justin A. Lemkul
• [gmx-users] Reduce the frequency to apply distance restrain   Li, Hualin
  • [gmx-users] Reduce the frequency to apply distance restrain   Justin A. Lemkul
• [gmx-users] FEP   Fabian Casteblanco
  • [gmx-users] FEP   Michael Shirts
  • [gmx-users] Re: FEP   Fabian Casteblanco
  • [gmx-users] Re: FEP   Fabian Casteblanco
• [gmx-users] Re: reasons for slow computation?   Yun Shi
  • [gmx-users] Re: reasons for slow computation?   Justin A. Lemkul
• [gmx-users] not guaranteed to be binary identical ?   Yun Shi
  • [gmx-users] not guaranteed to be binary identical ?   Justin A. Lemkul
• [gmx-users] Re: reasons for slow computation?   Yun Shi
  • [gmx-users] Re: reasons for slow computation?   Mark Abraham
  • [gmx-users] Re: reasons for slow computation?   Tsjerk Wassenaar
• [gmx-users] RE: How to obtain structures with large RMSD?   Ehud Schreiber
• [gmx-users] vdwtype = cut-off   Carla Jamous
• [gmx-users] vdwtype = cut-off   Mark Abraham
• [gmx-users] H-bond lifetime with g_hbond   Anna Marabotti
  • [gmx-users] H-bond lifetime with g_hbond   Justin A. Lemkul
• [gmx-users] Pressure very high with chloroform and gromacs-4.5.5   Nuno Azoia
  • [gmx-users] Pressure very high with chloroform and gromacs-4.5.5   Mark Abraham
    • [gmx-users] Pressure very high with chloroform and gromacs-4.5.5   Nuno Azoia
      • [gmx-users] Pressure very high with chloroform and gromacs-4.5.5   Mark Abraham
      • [gmx-users] Pressure very high with chloroform and gromacs-4.5.5   Nuno Azoia
      • [gmx-users] Pressure very high with chloroform and gromacs-4.5.5   Mark Abraham
• [gmx-users] gromacs installation   Chunxia Gao
  • [gmx-users] RE: gromacs installation   Li, Hualin
• [gmx-users] Re: reasons for slow computation?   Yun Shi
  • [gmx-users] Re: reasons for slow computation?   Mark Abraham
• [gmx-users] lipid membrane slicing   Poojari, Chetan
  • [gmx-users] lipid membrane slicing   Igor Marques
    • [gmx-users] lipid membrane slicing   Justin A. Lemkul
      • [gmx-users] lipid membrane slicing   Poojari, Chetan
      • [gmx-users] lipid membrane slicing   Justin A. Lemkul
      • [gmx-users] lipid membrane slicing   Poojari, Chetan
      • [gmx-users] lipid membrane slicing   Justin A. Lemkul
      • [gmx-users] lipid membrane slicing   Poojari, Chetan
      • [gmx-users] lipid membrane slicing   Justin A. Lemkul
  • [gmx-users] lipid membrane slicing   lina
• [gmx-users] RE:RE: gromacs installation   Chunxia Gao
  • [gmx-users] RE:RE: gromacs installation   Szilárd Páll
  • [gmx-users] RE:RE: gromacs installation   Da-Wei Li
• [gmx-users] Implicit solvent problems   liaoxyi
  • [gmx-users] Implicit solvent problems   Mark Abraham
• [gmx-users] Gromacs: Cloud Vs. Boinc Server?   lloyd riggs
  • [gmx-users] Gromacs: Cloud Vs. Boinc Server?   Szilárd Páll
    • [gmx-users] Gromacs: Cloud Vs. Boinc Server?   Matt Larson
      • [gmx-users] Gromacs: Cloud Vs. Boinc Server?   Szilárd Páll
• [gmx-users] R: Re: H-bond lifetime with g_hbond   Anna Marabotti
• [gmx-users] Umbrella sampling COM distance   nahren manuel
• [gmx-users] Uniform Distribution of drug molecules inside water spc216   meisam valizadeh kiamahalleh
  • [gmx-users] Uniform Distribution of drug molecules inside water spc216   Justin A. Lemkul
  • [gmx-users] Uniform Distribution of drug molecules inside water spc216   Mark Abraham
• [gmx-users] Potential Energy Landscape   Natalie Stephenson
  • [gmx-users] Potential Energy Landscape   Justin A. Lemkul
    • [gmx-users] Potential Energy Landscape   Natalie Stephenson
      • [gmx-users] Potential Energy Landscape   Justin A. Lemkul
• [gmx-users] protein-water distance restraints   Markus Weingarth
  • [gmx-users] protein-water distance restraints   Francesco Oteri
• [gmx-users] protein-water distance restraints   Markus Weingarth
  • [gmx-users] protein-water distance restraints   Justin A. Lemkul
• [gmx-users] mktop   ram bio
  • [gmx-users] mktop   Justin A. Lemkul
• Fwd: [gmx-users] mktop   ram bio
• [gmx-users] Re: gmx-users Digest, Vol 90, Issue 48   meisam valizadeh kiamahalleh
  • [gmx-users] Uniform Distribution of drug molecules inside water spc216   Justin A. Lemkul
• [gmx-users] mktop   Justin A. Lemkul
  • [gmx-users] mktop   ram bio
    • [gmx-users] mktop   Justin A. Lemkul
      • [gmx-users] mktop   ram bio
      • [gmx-users] mktop   Justin A. Lemkul
      • [gmx-users] mktop   ram bio
      • [gmx-users] mktop   Justin A. Lemkul
• [gmx-users] Peturbing a Dihedral for FEP   Fabian Casteblanco
• [gmx-users] mktop/swissparam   ram bio
• [gmx-users] Implicit solvent problems   Dallas Warren
• [gmx-users] Error while running methane in water simulation   vivek sharma
  • [gmx-users] Error while running methane in water simulation   Justin A. Lemkul
• [gmx-users] Unable to download gromacs-4.5.5.tar.gz   Rasale, Anupama
  • [gmx-users] New DSSP vs do_dssp (gromacs-4.5.4)   Ahmad Randy
    • [gmx-users] New DSSP vs do_dssp (gromacs-4.5.4)   Mark Abraham
    • [gmx-users] New DSSP vs do_dssp (gromacs-4.5.4)   lina
• [gmx-users] Particle Insertion Method tpi - units and compensation of charged system   Kathleen Kirchner
• [gmx-users] Re: Implicit solvent problems   liaoxyi
  • [gmx-users] Re: Implicit solvent problems   Mark Abraham
• [gmx-users] where are Density and Volume?   Yao Yao
  • [gmx-users] where are Density and Volume?   Justin A. Lemkul
• [gmx-users] where are Density and Volume?   Justin A. Lemkul
  • [gmx-users] where are Density and Volume?   Yao Yao
    • [gmx-users] where are Density and Volume?   Justin A. Lemkul
      • [gmx-users] where are Density and Volume?   Yao Yao
      • [gmx-users] where are Density and Volume?   Justin A. Lemkul
      • [gmx-users] where are Density and Volume?   Yao Yao
      • [gmx-users] where are Density and Volume?   Justin A. Lemkul
• [gmx-users] pdb2gmx charmm topology lipid   ram bio
  • [gmx-users] Re: pdb2gmx charmm topology lipid   Justin A. Lemkul
• [gmx-users] REMD and GBSA   Ben Reynwar
  • [gmx-users] REMD and GBSA   Mark Abraham
    • [gmx-users] Gromacs 4.5.5 installation on Cygwin   Mr Bernard Ramos
    • [gmx-users] REMD and GBSA   Ben Reynwar
      • [gmx-users] REMD and GBSA   Mark Abraham
• [gmx-users] why the pressure fluctuated wildly during the simulation?   杜波
  • [gmx-users] why the pressure fluctuated wildly during the simulation?   Justin A. Lemkul
• [gmx-users] generation of acetic acid protonated .itp file   Sunita Patel
  • [gmx-users] generation of acetic acid protonated .itp file   Justin A. Lemkul
• [gmx-users] Re:   lloyd riggs
• [gmx-users] Ree: Gromacs: Cloud Vs. Boinc Server   lloyd riggs
• [gmx-users] Re:SMD Vs. A and B state   lloyd riggs
• [gmx-users] reg plumed gromacs   vidhya sankar
  • [gmx-users] reg plumed gromacs   Mark Abraham
• [gmx-users] Mixing Force Fields   Fabian Casteblanco
  • [gmx-users] Mixing Force Fields   Mark Abraham
• [gmx-users] Martini force field: elastic network   Li, Hualin
  • [gmx-users] Martini force field: elastic network   XAvier Periole
    • [gmx-users] Martini force field: elastic network   Li, Hualin
      • [gmx-users] Martini force field: elastic network   Tsjerk Wassenaar
      • [gmx-users] Martini force field: elastic network   Li, Hualin
• [gmx-users] Re:Mixing Force Fields   Dr. Vitaly V. Chaban
• [gmx-users] Gromacs 4.5.5 installation with Cygwin   Mr Bernard Ramos
• [gmx-users] Link to Intel MKL (fftw) via cmake options   Mirco Wahab
  • [gmx-users] Link to Intel MKL (fftw) via cmake options   Mark Abraham
    • [gmx-users] Link to Intel MKL (fftw) via cmake options   Mirco Wahab
      • [gmx-users] Link to Intel MKL (fftw) via cmake options   Mark Abraham
      • [gmx-users] Link to Intel MKL (fftw) via cmake options   Mirco Wahab
      • [gmx-users] oops, s/gcc 4.5.1/icc 12.1.0/   Mirco Wahab
      • [gmx-users] Link to Intel MKL (fftw) via cmake options   Mark Abraham
      • [gmx-users] Link to Intel MKL (fftw) via cmake options   Mirco Wahab
      • [gmx-users] Link to Intel MKL (fftw) via cmake options   Szilárd Páll
• [gmx-users] Ensemble averaged restraints   santhu kumar
• [gmx-users] Normal Mode Analysis   James Starlight
  • [gmx-users] Normal Mode Analysis   lina
    • [gmx-users] Normal Mode Analysis   James Starlight
      • [gmx-users] Normal Mode Analysis   Mark Abraham
      • [gmx-users] Normal Mode Analysis   James Starlight
      • [gmx-users] Normal Mode Analysis   James Starlight
      • [gmx-users] Normal Mode Analysis   Mark Abraham
      • [gmx-users] Normal Mode Analysis   James Starlight
      • [gmx-users] Normal Mode Analysis   Mark Abraham
      • [gmx-users] Normal Mode Analysis   James Starlight
      • [gmx-users] Normal Mode Analysis   Mark Abraham
      • [gmx-users] Normal Mode Analysis   James Starlight
      • [gmx-users] Normal Mode Analysis   Mark Abraham
      • [gmx-users] Normal Mode Analysis   James Starlight
      • [gmx-users] Normal Mode Analysis   Justin A. Lemkul
      • [gmx-users] Normal Mode Analysis   Tsjerk Wassenaar
      • [gmx-users] Normal Mode Analysis   James Starlight
      • [gmx-users] Normal Mode Analysis   Justin A. Lemkul
      • [gmx-users] Normal Mode Analysis   James Starlight
      • [gmx-users] Normal Mode Analysis   James Starlight
      • [gmx-users] Normal Mode Analysis   Mark Abraham
      • [gmx-users] Normal Mode Analysis   James Starlight
      • [gmx-users] Normal Mode Analysis   Justin A. Lemkul
      • [gmx-users] Normal Mode Analysis   Mark Abraham
• [gmx-users] how to calculate the normal of plane for Tryptophan or how to get the comparison matrix in g_rms   xiaodong huang
• [gmx-users] Domain decomposition error in alchemical free energy perturbation MD   Xiaoxiao He
  • [gmx-users] Domain decomposition error in alchemical free energy perturbation MD   lina
  • [gmx-users] Re: Domain decomposition error in alchemical free energy perturbation MD   Xiaoxiao He
• [gmx-users] How to obtain and how to use acpype   leila karami
  • [gmx-users] How to obtain and how to use acpype   Kavyashree M
• [gmx-users] How to obtain and how to use acpype   leila karami
• [gmx-users] how to calculate the normal of plane for Tryptophan or how to get the comparison matrix in g_rms   xiaodong huang
  • [gmx-users] how to calculate the normal of plane for Tryptophan or how to get the comparison matrix in g_rms   Broadbent, Richard
    • [gmx-users] how to calculate the normal of plane for Tryptophan or how to get the comparison matrix in g_rms   Mark Abraham
• [gmx-users] would trjcat correctly delete extra frames?   Yun Shi
  • [gmx-users] would trjcat correctly delete extra frames?   Tsjerk Wassenaar
• [gmx-users] Simulation of membrane protein   James Starlight
  • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
    • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Tsjerk Wassenaar
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   James Starlight
      • [gmx-users] Simulation of membrane protein   Justin A. Lemkul
      • [gmx-users] Simulation of membrane protein   Mark Abraham
• [gmx-users] water passage during simulation   madhumita das
  • [gmx-users] water passage during simulation   Justin A. Lemkul
• [gmx-users] about the pulling   Tom
  • [gmx-users] about the pulling   Justin A. Lemkul
  • [gmx-users] Fwd: about the pulling   Tom
    • [gmx-users] Re: Fwd: about the pulling   Justin A. Lemkul
      • [gmx-users] Re: Fwd: about the pulling   Tom
• [gmx-users] g_hbond frames   Yao Yao
  • [gmx-users] g_hbond frames   Justin A. Lemkul
• [gmx-users] topologies for POPE and DMPE   Roy Lee
  • [gmx-users] topologies for POPE and DMPE   Thomas Piggot
• [gmx-users] trjconv:solute at the center   Nilesh Dhumal
  • [gmx-users] trjconv:solute at the center   Justin A. Lemkul
    • [gmx-users] trjconv:solute at the center   Nilesh Dhumal
      • [gmx-users] trjconv:solute at the center   Justin A. Lemkul
      • [gmx-users] trjconv:solute at the center   Nilesh Dhumal
      • [gmx-users] trjconv:solute at the center   Justin A. Lemkul
      • [gmx-users] trjconv:solute at the center   Nilesh Dhumal
      • [gmx-users] trjconv:solute at the center   Justin A. Lemkul
      • [gmx-users] trjconv:solute at the center   Tsjerk Wassenaar
      • [gmx-users] trjconv:solute at the center   Nilesh Dhumal
      • [gmx-users] trjconv:solute at the center   Tsjerk Wassenaar
• [gmx-users] cyclosporine A   Алексей Раевский
  • [gmx-users] cyclosporine A   Mark Abraham
• [gmx-users] Implicit solvation   Soumya Lipsa Rath
  • [gmx-users] Implicit solvation   bipin singh
• [gmx-users] CHARMM GUI to Gromacs   Roy Lee
  • [gmx-users] CHARMM GUI to Gromacs   bipin singh
• [gmx-users] High temperature Simulation   Kavyashree M
  • [gmx-users] High temperature Simulation   bipin singh
    • [gmx-users] High temperature Simulation   Kavyashree M
      • [gmx-users] High temperature Simulation   Justin A. Lemkul
      • [gmx-users] High temperature Simulation   bipin singh
      • [gmx-users] High temperature Simulation   Kavyashree M
      • [gmx-users] High temperature Simulation   Kavyashree M
      • [gmx-users] High temperature Simulation   Justin A. Lemkul
      • [gmx-users] High temperature Simulation   Kavyashree M
      • [gmx-users] High temperature Simulation   Justin A. Lemkul
      • [gmx-users] High temperature Simulation   Kavyashree M
      • [gmx-users] High temperature Simulation   Justin A. Lemkul
      • [gmx-users] High temperature Simulation   Kavyashree M
      • [gmx-users] High temperature Simulation   Justin A. Lemkul
      • [gmx-users] High temperature Simulation   Kavyashree M
    • [gmx-users] High temperature Simulation   Justin A. Lemkul
      • [gmx-users] High temperature Simulation   bipin singh
      • [gmx-users] High temperature Simulation   Daniel Adriano Silva M
      • [gmx-users] High temperature Simulation   Mark Abraham
• [gmx-users] RE:Free energy methods Protein-Protein   lloyd riggs
• [gmx-users] Spherical constraint (spherical force)   Mikhail Stukan
  • [gmx-users] Spherical constraint (spherical force)   Mark Abraham
  • [gmx-users] Spherical constraint (spherical force)   Jochen Hub
• [gmx-users] Interaction energy   Steven Neumann
  • [gmx-users] Interaction energy   Justin A. Lemkul
    • [gmx-users] Interaction energy   Steven Neumann
      • [gmx-users] Interaction energy   Justin A. Lemkul
      • [gmx-users] Interaction energy   Steven Neumann
      • [gmx-users] Interaction energy   Justin A. Lemkul
• [gmx-users] Re: gmx-users Digest, Vol 90, Issue 82   Алексей Раевский
  • [gmx-users] acylation of peptide   Mark Abraham
• [gmx-users] topologies for POPE and DMPE   Thomas Piggot
• [gmx-users] Updating charges on-the-fly   J. Nathan Scott
  • [gmx-users] Updating charges on-the-fly   Mark Abraham
• [gmx-users] box dimension   Nilesh Dhumal
  • [gmx-users] box dimension   Mark Abraham
    • [gmx-users] box dimension   Nilesh Dhumal
      • [gmx-users] box dimension   Mark Abraham
• [gmx-users] solvents in gmx   Yao Yao
  • [gmx-users] solvents in gmx   Justin A. Lemkul
    • [gmx-users] solvents in gmx   David van der Spoel
• [gmx-users] some problems when using g_membed   mircial at sjtu.edu.cn
  • [gmx-users] some problems when using g_membed   Mark Abraham
• [gmx-users] do Shell Molecular Dynamics with GROMACS   杜波
• [gmx-users] some questions about calculation of dipole ACF   RuiTing Zhang
• [gmx-users] dihedral restraint violation output   Markus Weingarth
• [gmx-users] RE:Interaction Energy   lloyd riggs
  • [gmx-users] RE:Interaction Energy   Steven Neumann
    • [gmx-users] RE:Interaction Energy   Justin A. Lemkul
      • [gmx-users] RE:Interaction Energy   Steven Neumann
• [gmx-users] potential energy of one molecule using GAFF: confused regarding Ryckaert-Bellemans and 1-4 potentials   Vedat Durmaz
  • [gmx-users] potential energy of one molecule using GAFF: confused regarding Ryckaert-Bellemans and 1-4 potentials   Mark Abraham
    • [gmx-users] potential energy of one molecule using GAFF: confused regarding Ryckaert-Bellemans and 1-4 potentials   Vedat Durmaz
      • [gmx-users] potential energy of one molecule using GAFF: confused regarding Ryckaert-Bellemans and 1-4 potentials   Mark Abraham
      • [gmx-users] potential energy of one molecule using GAFF: confused regarding Ryckaert-Bellemans and 1-4 potentials   Vedat Durmaz
• [gmx-users] N-terminal PGLU and C-term amidation   Henry Hocking
• [gmx-users] About pair distribution function   vidhya sankar
• [gmx-users] calculation time   ahmet yıldırım
  • [gmx-users] calculation time   Mark Abraham
• [gmx-users] Charmm27 ff for membrane protein simulation   James Starlight
  • [gmx-users] Charmm27 ff for membrane protein simulation   Justin A. Lemkul
    • [gmx-users] Charmm27 ff for membrane protein simulation   Thomas Piggot
      • [gmx-users] Charmm27 ff for membrane protein simulation   James Starlight
• [gmx-users] Energy Drift   Ben Reynwar
  • [gmx-users] Energy Drift   Justin A. Lemkul
    • [gmx-users] Energy Drift   Per Larsson
• [gmx-users] Gromacs versions 4.0.5 and 4.5.4   Sapna Sarupria
  • [gmx-users] Gromacs versions 4.0.5 and 4.5.4   Itamar Kass
    • [gmx-users] Gromacs versions 4.0.5 and 4.5.4   Sapna Sarupria
      • [gmx-users] Gromacs versions 4.0.5 and 4.5.4   Itamar Kass
      • [gmx-users] Gromacs versions 4.0.5 and 4.5.4   Justin A. Lemkul
      • [gmx-users] Gromacs versions 4.0.5 and 4.5.4   Sapna Sarupria
      • [gmx-users] Gromacs versions 4.0.5 and 4.5.4   Sapna Sarupria
      • [gmx-users] Gromacs versions 4.0.5 and 4.5.4   Itamar Kass
      • [gmx-users] Gromacs versions 4.0.5 and 4.5.4   Mark Abraham
      • [gmx-users] Gromacs versions 4.0.5 and 4.5.4   Sapna Sarupria
• [gmx-users] reg g_rdf   vidhya sankar
  • [gmx-users] reg g_rdf   Justin A. Lemkul
• [gmx-users] reg g_rdf   vidhya sankar
  • [gmx-users] reg g_rdf   Justin A. Lemkul
• [gmx-users] Using CHARMM force fields in Gromacs   Jernej Zidar
• [gmx-users] calculation time   Emanuel Birru
  • [gmx-users] calculation time   ahmet yıldırım
    • [gmx-users] calculation time   Mark Abraham
      • [gmx-users] calculation time   ahmet yıldırım
      • [gmx-users] calculation time   Mark Abraham
• [gmx-users] atom names in ffbonded.itp (oplsaa.ff)   mu xiaojia
  • [gmx-users] atom names in ffbonded.itp (oplsaa.ff)   Mark Abraham
• [gmx-users] MD duration   Алексей Раевский
• [gmx-users] Reference structure for g_covar   vivek modi
  • [gmx-users] Reference structure for g_covar   Tsjerk Wassenaar
• [gmx-users] ZN charge   francesco oteri
  • [gmx-users] ZN charge   Justin A. Lemkul
  • [gmx-users] ZN charge   Mark Abraham
• [gmx-users] Problem in the inclusion of Potassium ion topology   Venkat Reddy
  • [gmx-users] Problem in the inclusion of Potassium ion topology   Mark Abraham
• [gmx-users] REMD output   Wright, Louise
  • [gmx-users] REMD output   Mark Abraham
• [gmx-users] Minimization error   aiswarya.pawar at gmail.com
  • [gmx-users] Minimization error   mu xiaojia
  • [gmx-users] Minimization error   Justin A. Lemkul
    • [gmx-users] Minimization error   aiswarya pawar
      • [gmx-users] Minimization error   Mark Abraham
• [gmx-users] improper OPLS dihedrals in gromacs   mu xiaojia
  • [gmx-users] improper OPLS dihedrals in gromacs   Mark Abraham
  • [gmx-users] improper OPLS dihedrals in gromacs   Richard Broadbent
• [gmx-users] Simulating an alkanethiol SAM on gold: atom type not recognized when running pdb2gmx   Olivia Waring
  • [gmx-users] Simulating an alkanethiol SAM on gold: atom type not recognized when running pdb2gmx   Justin A. Lemkul
• [gmx-users] Solvent accessible surface area units   Sai Pooja
  • [gmx-users] Solvent accessible surface area units   Mark Abraham
• [gmx-users] force field for argon   Dmitri Dubov
• [gmx-users] second defaults directive   madhumita das
  • [gmx-users] second defaults directive   Justin A. Lemkul
• [gmx-users] Preparation of the pure lipid system with charmm force field   James Starlight
  • [gmx-users] Preparation of the pure lipid system with charmm force field   James Starlight
  • [gmx-users] Re: Preparation of the pure lipid system with charmm force field   James Starlight
    • [gmx-users] Re: Preparation of the pure lipid system with charmm force field   Mark Abraham
      • [gmx-users] Re: Preparation of the pure lipid system with charmm force field   James Starlight
      • [gmx-users] Re: Preparation of the pure lipid system with charmm force field   Justin A. Lemkul
      • [gmx-users] Re: Preparation of the pure lipid system with charmm force field   James Starlight
      • [gmx-users] Re: Preparation of the pure lipid system with charmm force field   Justin A. Lemkul
      • [gmx-users] Re: Preparation of the pure lipid system with charmm force field   James Starlight
      • [gmx-users] Re: Preparation of the pure lipid system with charmm force field   Justin A. Lemkul
      • [gmx-users] Re: Preparation of the pure lipid system with charmm force field   James Starlight
      • [gmx-users] Re: Preparation of the pure lipid system with charmm force field   Justin A. Lemkul
• [gmx-users] gromacs command help text   Sikandar Mashayak
  • [gmx-users] gromacs command help text   Justin A. Lemkul
    • [gmx-users] gromacs command help text   Sikandar Mashayak
• [gmx-users] Re: Re: Reference structure for g_covar   vivek modi
• [gmx-users] Re: Re: Reference structure for g_covar   Tsjerk Wassenaar
• [gmx-users] extending simulation with grompp incorporating velocities   Chandan Choudhury
  • [gmx-users] extending simulation with grompp incorporating velocities   Mark Abraham
    • [gmx-users] extending simulation with grompp incorporating velocities   Chandan Choudhury
      • [gmx-users] extending simulation with grompp incorporating velocities   Mark Abraham
• [gmx-users] increase the time frame   aiswarya pawar
  • [gmx-users] increase the time frame   Mark Abraham
    • [gmx-users] increase the time frame   aiswarya pawar
• [gmx-users] Residue - ligand interaction energy   Steven Neumann
• [gmx-users] (no subject)   pratik kaku
  • [gmx-users] TIP5P calculating the dummy positions   pratik kaku
    • [gmx-users] TIP5P calculating the dummy positions   Richard Broadbent
      • [gmx-users] TIP5P calculating the dummy positions   pratik kaku
      • [gmx-users] TIP5P calculating the dummy positions   Richard Broadbent
• [gmx-users] Using Amber Force Field in gromacs   madhumita das
  • [gmx-users] Using Amber Force Field in gromacs   Justin A. Lemkul
• [gmx-users] extend simulation without tpbconv   Chandan Choudhury
  • [gmx-users] extend simulation without tpbconv   Mark Abraham
• [gmx-users] mismatch in coordinate and topology   Samrat Pal
  • [gmx-users] mismatch in coordinate and topology   Justin A. Lemkul
    • [gmx-users] mismatch in coordinate and topology   Samrat Pal
      • [gmx-users] mismatch in coordinate and topology   Justin A. Lemkul
      • [gmx-users] mismatch in coordinate and topology   Samrat Pal
      • [gmx-users] mismatch in coordinate and topology   Justin A. Lemkul
• [gmx-users] reg Hydrophobic interaction   vidhya sankar
  • [gmx-users] reg Hydrophobic interaction   Justin A. Lemkul
• [gmx-users] POPC bilayer with Charmmff   ram bio
• [gmx-users] Non-covalent interactions in the protein-ligand systems   James Starlight
• [gmx-users] antifreeze water in martini coarse-grained   mohammad agha
• [gmx-users] Gromacs-GPU with an Nvidia GeForce GTX 580 error?   Matt Larson
  • [gmx-users] Gromacs-GPU with an Nvidia GeForce GTX 580 error?   Szilárd Páll
    • [gmx-users] Gromacs-GPU with an Nvidia GeForce GTX 580 error?   Matt Larson
      • [gmx-users] Gromacs-GPU with an Nvidia GeForce GTX 580 error?   Szilárd Páll
• [gmx-users] no economic problems since i started it...   X Rules
• [gmx-users] ATP+Mg   Алексей Раевский
• [gmx-users] trjconv - PBC   Steven Neumann
  • [gmx-users] trjconv - PBC   Justin A. Lemkul
    • [gmx-users] trjconv - PBC   Tsjerk Wassenaar
      • [gmx-users] trjconv - PBC   Steven Neumann
      • [gmx-users] trjconv - PBC   Tsjerk Wassenaar
      • [gmx-users] trjconv - PBC   Steven Neumann
      • [gmx-users] trjconv - PBC   Steven Neumann
      • [gmx-users] trjconv - PBC   Justin A. Lemkul
• [gmx-users] failure during compiling gromacs 4.5.5   Ye MEI
  • [gmx-users] modeling cation-pi box   EGY
    • [gmx-users] modeling cation-pi box   Justin A. Lemkul
      • [gmx-users] modeling cation-pi box   EGY
      • [gmx-users] modeling cation-pi box   Justin A. Lemkul
      • [gmx-users] modeling cation-pi box   Mark Abraham
  • [gmx-users] failure during compiling gromacs 4.5.5   Szilárd Páll
    • Re: Re: [gmx-users] failure during compiling gromacs 4.5.5   Ye MEI
      • [gmx-users] failure during compiling gromacs 4.5.5   Szilárd Páll
• [gmx-users] Lyzosyme with ligand tutorial   James Starlight
  • [gmx-users] Lyzosyme with ligand tutorial   Justin A. Lemkul
    • [gmx-users] Lyzosyme with ligand tutorial   James Starlight
      • [gmx-users] Lyzosyme with ligand tutorial   Justin A. Lemkul
      • [gmx-users] Lyzosyme with ligand tutorial   James Starlight
      • [gmx-users] Lyzosyme with ligand tutorial   Mark Abraham
• [gmx-users] Link to Intel MKL (fftw) via cmake options   Szilárd Páll
  • [gmx-users] Link to Intel MKL (fftw) via cmake options   Szilárd Páll
    • [gmx-users] Link to Intel MKL (fftw) via cmake options   Mirco Wahab
      • [gmx-users] Link to Intel MKL (fftw) via cmake options   Mark Abraham
• [gmx-users] Slow in double-precision version   Sai Pooja
  • [gmx-users] Slow in double-precision version   Mark Abraham
    • [gmx-users] Slow in double-precision version   Sai Pooja
      • [gmx-users] Slow in double-precision version   Mark Abraham
• [gmx-users] the order parameter obtained by g_angle   Z.Xiao
• [gmx-users] nonane solvent   Vijayaraj
  • [gmx-users] nonane solvent   Justin A. Lemkul
• [gmx-users] Fatal error in MPI_Allreduce upon REMD restart   Ben Reynwar
  • [gmx-users] Fatal error in MPI_Allreduce upon REMD restart   Szilárd Páll
    • [gmx-users] Fatal error in MPI_Allreduce upon REMD restart   Mark Abraham
      • [gmx-users] Fatal error in MPI_Allreduce upon REMD restart   Ben Reynwar
      • [gmx-users] Fatal error in MPI_Allreduce upon REMD restart   Mark Abraham
      • [gmx-users] Fatal error in MPI_Allreduce upon REMD restart   Ben Reynwar
• [gmx-users] Gromacs inquiries   cuong nguyen
  • [gmx-users] Gromacs inquiries   Mark Abraham
    • [gmx-users] Gromacs inquiries   cuong nguyen
      • [gmx-users] Gromacs inquiries   Justin A. Lemkul
      • [gmx-users] Gromacs inquiries   Mark Abraham
• [gmx-users] how can I get the .top file??   Kiwoong Kim
  • [gmx-users] how can I get the .top file??   Justin A. Lemkul
• [gmx-users] About implicit wall...   Kiwoong Kim
  • [gmx-users] About implicit wall...   Mark Abraham
• [gmx-users] orientation restraints in binding free energy calculation   Chunxia Gao
• [gmx-users] difference between restrained and constrained   shahab shariati
  • [gmx-users] difference between restrained and constrained   Justin A. Lemkul
• [gmx-users] position restrained minimization on the one part of a system   Atila Petrosian
  • [gmx-users] position restrained minimization on the one part of a system   Mark Abraham
• [gmx-users] position restrained minimization on the one part of a system   Atila Petrosian
  • [gmx-users] position restrained minimization on the one part of a system   Mark Abraham
  • [gmx-users] position restrained minimization on the one part of a system   Tsjerk Wassenaar
• [gmx-users] position restrained minimization on the one part of a system   Atila Petrosian
  • [gmx-users] position restrained minimization on the one part of a system   Justin A. Lemkul
• [gmx-users] Adding hydrogens to united atom trajectories   Jon Kapla
• [gmx-users] position restrained minimization on the one part of a system   Atila Petrosian
  • [gmx-users] position restrained minimization on the one part of a system   Justin A. Lemkul
• [gmx-users] Center of simulation box   zhenlong li
  • [gmx-users] Center of simulation box   Justin A. Lemkul
• [gmx-users] query on OPLS-2005   Sanku M
  • [gmx-users] query on OPLS-2005   Cara Kreck
    • [gmx-users] query on OPLS-2005   Sanku M
• [gmx-users] polymer chain length and density   Juliette N.
  • [gmx-users] polymer chain length and density   Mark Abraham
• [gmx-users] Re:polymer chain length and density   Dr. Vitaly V. Chaban
• [gmx-users] convert parameters of Buckingham potential to/from LJ potential   Kan
  • [gmx-users] convert parameters of Buckingham potential to/from LJ potential   Justin A. Lemkul
• [gmx-users] trjconv and -pbc   lina
  • [gmx-users] trjconv and -pbc   Marzinek, Jan
    • [gmx-users] trjconv and -pbc   lina
      • [gmx-users] trjconv and -pbc   Mark Abraham
      • [gmx-users] trjconv and -pbc   lina
  • [gmx-users] trjconv and -pbc   Tsjerk Wassenaar
    • [gmx-users] trjconv and -pbc   lina
      • [gmx-users] trjconv and -pbc   Tsjerk Wassenaar
      • [gmx-users] trjconv and -pbc   vijaya subramanian
      • [gmx-users] trjconv and -pbc   lina
      • [gmx-users] trjconv and -pbc   Tsjerk Wassenaar
      • [gmx-users] trjconv and -pbc   Tsjerk Wassenaar
      • [gmx-users] trjconv and -pbc   lina
      • [gmx-users] trjconv and -pbc   Tsjerk Wassenaar
• [gmx-users] Installing Gromacs 4.5.3 on Mac OS X   Denny Frost
  • [gmx-users] Installing Gromacs 4.5.3 on Mac OS X   Mark Abraham
    • [gmx-users] Installing Gromacs 4.5.3 on Mac OS X   Denny Frost
• [gmx-users] How to convert a gromacs trajectory to Desmond trajectory format   Sanku M
  • [gmx-users] How to convert a gromacs trajectory to Desmond trajectory format   Mark Abraham
    • [gmx-users] How to convert a gromacs trajectory to Desmond trajectory format   Sanku M
      • [gmx-users] How to convert a gromacs trajectory to Desmond trajectory format   Mark Abraham
• [gmx-users] problem with compiling fftw   Sanku M
  • [gmx-users] problem with compiling fftw   Mark Abraham
• [gmx-users] trjconv and -pbc   Tsjerk Wassenaar
• [gmx-users] Parametrisation of the heteroatomic pdb   James Starlight
  • [gmx-users] Parametrisation of the heteroatomic pdb   Justin A. Lemkul
    • [gmx-users] Parametrisation of the heteroatomic pdb   James Starlight
      • [gmx-users] Parametrisation of the heteroatomic pdb   Justin A. Lemkul
      • [gmx-users] Parametrisation of the heteroatomic pdb   James Starlight
      • [gmx-users] Parametrisation of the heteroatomic pdb   Justin A. Lemkul
      • [gmx-users] Parametrisation of the heteroatomic pdb   James Starlight
      • [gmx-users] Parametrisation of the heteroatomic pdb   Justin A. Lemkul
      • [gmx-users] Parametrisation of the heteroatomic pdb   James Starlight
      • [gmx-users] Parametrisation of the heteroatomic pdb   Mark Abraham
      • [gmx-users] Parametrisation of the heteroatomic pdb   James Starlight
      • [gmx-users] Parametrisation of the heteroatomic pdb   Mark Abraham
      • [gmx-users] Parametrisation of the heteroatomic pdb   James Starlight
      • [gmx-users] Parametrisation of the heteroatomic pdb   Mark Abraham
      • [gmx-users] Parametrisation of the heteroatomic pdb   James Starlight
      • [gmx-users] Parametrisation of the heteroatomic pdb   Justin A. Lemkul
      • [gmx-users] Parametrisation of the heteroatomic pdb   James Starlight
      • [gmx-users] Parametrisation of the heteroatomic pdb   Justin A. Lemkul
• [gmx-users] umbrella sampling   Vijayaraj
  • [gmx-users] umbrella sampling   Justin A. Lemkul
• [gmx-users] extending umbrella sampling runs   Poojari, Chetan
  • [gmx-users] extending umbrella sampling runs   Poojari, Chetan
    • [gmx-users] extending umbrella sampling runs   Justin A. Lemkul
• [gmx-users] Hbonds - Res - Ligand   Steven Neumann
  • [gmx-users] Re: Hbonds - Res - Ligand   Steven Neumann
    • [gmx-users] Re: Hbonds - Res - Ligand   Steven Neumann
      • [gmx-users] Re: Hbonds - Res - Ligand   Justin A. Lemkul
• [gmx-users] Re: umbrella sampling   Vijayaraj
• [gmx-users] umbrella sampling   chris.neale at utoronto.ca
• [gmx-users] file.itp for separated molecules   Fahimeh Baftizadeh
  • [gmx-users] file.itp for separated molecules   Justin A. Lemkul
• [gmx-users] lost ngmx   Victor
  • [gmx-users] lost ngmx   Mark Abraham
  • [gmx-users] lost ngmx   lina
• [gmx-users] pdb2gmx problem with ACE N-cap   Sanku M
  • [gmx-users] pdb2gmx problem with ACE N-cap   Justin A. Lemkul
• [gmx-users] How to change moment of inertia of a molecule   Rini Gupta
  • [gmx-users] How to change moment of inertia of a molecule   Mark Abraham
• [gmx-users] Mismatching in Bergers DMPC bilayer lipid topology   James Starlight
• [gmx-users] Difference in hydrogen bonds between different softwares   larif sofiene
  • [gmx-users] Difference in hydrogen bonds between different softwares   Mark Abraham
• [gmx-users] Structure preparation for the simulation   James Starlight
• [gmx-users] Re: Dear Chaban lincs warning   Dr. Vitaly V. Chaban
• [gmx-users] position restraints on heavy atoms or all?   Yun Shi
  • [gmx-users] position restraints on heavy atoms or all?   Mark Abraham
• [gmx-users] System heating up during MD run? (Implicit solvent)   Matt Larson
  • [gmx-users] System heating up during MD run? (Implicit solvent)   Per Larsson
    • [gmx-users] System heating up during MD run? (Implicit solvent)   Justin A. Lemkul
• [gmx-users] how to calculate the force between two groups   Tom
  • [gmx-users] how to calculate the force between two groups   Mark Abraham
• [gmx-users] Prosessing of the pre-eqilibrated lipid bilayer   James Starlight
  • [gmx-users] Re: Prosessing of the pre-eqilibrated lipid bilayer   James Starlight
• [gmx-users] Interfacial tension of liquid-liquid system   Karina Kovalchuk
• [gmx-users] problem with Threading during run   Sanku M
  • [gmx-users] problem with Threading during run   Mark Abraham
  • [gmx-users] problem with Threading during run   lina
    • [gmx-users] problem with Threading during run   Mark Abraham
• [gmx-users] average structure   larifsofiene
  • [gmx-users] average structure   Mark Abraham
• [gmx-users] Nonbonded energy Protein-Ligands   Steven Neumann
  • [gmx-users] Nonbonded energy Protein-Ligands   Mark Abraham
• [gmx-users] Number of nodes   Kavyashree M
  • [gmx-users] Number of nodes   Justin A. Lemkul
    • [gmx-users] Number of nodes   Kavyashree M
      • [gmx-users] Number of nodes   Mark Abraham
• [gmx-users] Re: Dear Chaban lincs warning   Dr. Vitaly V. Chaban
• [gmx-users] Re: Dear Chaban lincs warning   Dr. Vitaly V. Chaban
• [gmx-users] Re: Structure preparation for the simulation   Dr. Vitaly V. Chaban
  • [gmx-users] Re: Structure preparation for the simulation   Itamar Kass
• [gmx-users] Adding Hydrogens by pdb2gmx   James Starlight
  • [gmx-users] Adding Hydrogens by pdb2gmx   Justin A. Lemkul
    • [gmx-users] Adding Hydrogens by pdb2gmx   James Starlight
      • [gmx-users] Adding Hydrogens by pdb2gmx   Justin A. Lemkul
      • [gmx-users] Adding Hydrogens by pdb2gmx   James Starlight
      • [gmx-users] Adding Hydrogens by pdb2gmx   Justin A. Lemkul
• [gmx-users] Mismatching in Bergers DMPC bilayer lipid topology   chris.neale at utoronto.ca
• [gmx-users] LINCS crushes   Yuri Garmay
  • [gmx-users] LINCS crushes   Justin A. Lemkul
    • [gmx-users] LINCS crushes   Yuri Garmay
• [gmx-users] Re: Re: Re: Reference structure for g_covar   vivek modi
• [gmx-users] Jarzinsky's inequality from SMD simulation   Sanku M
  • [gmx-users] Jarzinsky's inequality from SMD simulation   Laura Kingsley
    • [gmx-users] Jarzinsky's inequality from SMD simulation   Sanku M
      • [gmx-users] Jarzinsky's inequality from SMD simulation   Laura Kingsley
      • [gmx-users] Jarzinsky's inequality from SMD simulation   Justin A. Lemkul
• [gmx-users] Re: how to calculate the force between two groups (Mark Abraham)   Tom
• [gmx-users] gromacs query   Anushree Tripathi
  • [gmx-users] gromacs query   Justin A. Lemkul

Last message date: Mon Oct 31 23:42:51 CET 2011
Archived on: Thu Nov 14 12:11:47 CET 2013

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