Articles with the most revisions
Showing below up to 411 results in range #51 to #461.
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- 2016 AMBER tutorial with Beta Trypsin (59 revisions)
- MD Simulation: Protein in Water (58 revisions)
- DOCK VS Development Goals (57 revisions)
- 2011 AMS-535 Fall (57 revisions)
- 2015 AMBER tutorial with PARP (56 revisions)
- 2018 DOCK tutorial 2 with PDBID 1C87 (56 revisions)
- 2018 AMBER tutorial with 2nnq (54 revisions)
- 2019 RCR GROUP MEETING (53 revisions)
- 2015 RCR GROUP MEETING (53 revisions)
- 2019 DOCK tutorial 1 with PDBID 2BXF (52 revisions)
- 2017 RCR GROUP MEETING (52 revisions)
- 2020 AMBER tutorial with PDBID 3VJK (51 revisions)
- 2017 DOCK tutorial 2 with PDB 3GPL NEW (50 revisions)
- 2013 AMS-535 Fall (49 revisions)
- 2017 Denovo design tutorial 2 with PDB 4QMZ (46 revisions)
- 2011 RCR GROUP MEETING (45 revisions)
- DOCK DN Development Goals (44 revisions)
- De novo Developer Progress (44 revisions)
- 2015-2016 AMS-532 Fall-Spring (44 revisions)
- 2012 RCR GROUP MEETING (44 revisions)
- 2021 AMBER tutorial 3 with PDBID 1S19 (44 revisions)
- 2015 AMS-536 Spring (43 revisions)
- 2009-2010 AMS-532 Fall-Spring (43 revisions)
- DOCK GA Development Goals (43 revisions)
- DOCK Tutorials (41 revisions)
- AMS-532 Journal Club in Computational Biology (41 revisions)
- 2011-2012 AMS-532 Fall-Spring (41 revisions)
- AutoDock4 Pose Reproduction Tutorial (41 revisions)
- 2016 AMS-535 Fall (40 revisions)
- 2021 Denovo tutorial 1 with PDBID 1HW9 (39 revisions)
- 2023 Denovo tutorial 2 with PDBID 3WZE (39 revisions)
- 2020 AMS-536 Spring (39 revisions)
- 2019 Covalent docking tutorial 1 with PDB 5VKG (38 revisions)
- 2021 AMS-535 Fall (38 revisions)
- 2018 AMS-535 Fall (37 revisions)
- 2017 DOCK tutorial 1 with PDB 4QMZ NEW (37 revisions)
- 2013-2014 AMS-532 Fall-Spring (37 revisions)
- 2012 AMS-535 Fall (36 revisions)
- Virtual Screening Protocol on BlueGene (IGF-IR system) (35 revisions)
- 2021-2022 AMS-532 Fall-Spring (35 revisions)
- 2022 AMS-535 Fall (35 revisions)
- ZINC15 Database (34 revisions)
- 2010 AMS-536 Spring (34 revisions)
- 2015 AMS-535 Fall (33 revisions)
- Amber on Seawulf (compilation) (32 revisions)
- 2014 RCR GROUP MEETING (32 revisions)
- SB2010 (31 revisions)
- 2019 Covalent docking tutorial 1 with PDB 2VKG (31 revisions)
- 2013 RCR GROUP MEETING (30 revisions)
- 2014 AMS-535 Fall (29 revisions)
- 2017 AMS-535 Fall (29 revisions)
- 2016-2017 AMS-532 Fall-Spring (29 revisions)
- 2019-2020 AMS-532 Fall-Spring (29 revisions)
- 2022 AMS-536 Spring (28 revisions)
- 2011 DOCK tutorial with Streptavidin (28 revisions)
- Parameter List (28 revisions)
- 2014 AMS-536 Spring (27 revisions)
- Analysis Tools Repository (27 revisions)
- 2021 Denovo tutorial 3 with PDBID 1S19 (27 revisions)
- 2019 Denovo design tutorial 3 with PDB 3JQZ (27 revisions)
- DOCK VS Tutorials (27 revisions)
- 2013 AMS-536 Spring (27 revisions)
- 2019 Denovo design tutorial 2 with PDB 2P16 (26 revisions)
- Stony Brook Joint Group Meetings in Computational Structural Biology (26 revisions)
- 2019 AMS-535 Fall (26 revisions)
- 2020 AMS-536 Spring (original syllabus) (26 revisions)
- 2011 AMS-536 Spring (26 revisions)
- 2016 AMS-536 Spring (26 revisions)
- AMBER Tutorials (25 revisions)
- 2019 Denovo design tutorial 1 with PDB 2BXF (25 revisions)
- 2022 Denovo tutorial 2 with PDBID 4ZUD (24 revisions)
- 2018 Denovo design tutorial 1 with PDB 2NNQ (24 revisions)
- 2017-2018 AMS-532 Fall-Spring (23 revisions)
- 2019 AMBER tutorial with PDBID 2BXF (23 revisions)
- 2018-2019 AMS-532 Fall-Spring (22 revisions)
- 2017 AMBER tutorial with 4qmz (22 revisions)
- 2012 AMS-536 Spring (22 revisions)
- 2021 AMBER tutorial 1 with PDBID 1HW9 (22 revisions)
- Virtual Screening Protocol (21 revisions)
- 2020-2021 AMS-532 Fall-Spring (21 revisions)
- 2020 Denovo tutorial 4 with PDBID 6UZW (21 revisions)
- Make Unique script usage (20 revisions)
- 2022 AMBER tutorial 1 with PDBID 6ME2 (20 revisions)
- 2017 Dock tutorial (20 revisions)
- NAMD Amber inputs (20 revisions)
- Main Page (19 revisions)
- DOCK6 POSE Reproduction (19 revisions)
- How to purchase compounds for Rizzo lab (19 revisions)
- 2019 AMS-536 Spring (19 revisions)
- 2022 Denovo tutorial 3 with PDBID 1X70 (18 revisions)
- SB2021.v1 (18 revisions)
- 2023 AMS-536 Spring (18 revisions)
- 2022-2023 AMS-532 Fall-Spring (18 revisions)
- Development Goals Archive (18 revisions)
- Seawulf Items Needed (18 revisions)
- 2022 RCR GROUP MEETING (17 revisions)
- 2023 DOCK tutorial 3 with PDBID 2P16 (17 revisions)
- 2014-2015 AMS-532 Fall-Spring (17 revisions)
- 2016 RCR GROUP MEETING (16 revisions)
- DGHYD (16 revisions)
- Formating your Thesis (16 revisions)
- 2016 AMBER tutorial with Thrombin (15 revisions)
- 2022 Denovo tutorial 1 with PDBID 6ME2 (14 revisions)
- 2020 DOCK tutorial 2 with PDBID 2GQG (14 revisions)
- 2020 DOCK tutorial 2 with PDBID XXXX (14 revisions)
- 2018 AMS-536 Spring (14 revisions)
- 2020 Denovo tutorial 1 with PDBID 3VJK (14 revisions)
- 2021 Denovo tutorial 4 with PDBID 1EFY (14 revisions)
- Seawulf Cluster Assessment (14 revisions)
- 2012-2013 AMS-532 Fall-Spring (13 revisions)
- 2018 AMBER tutorial with 1c87 (13 revisions)
- Per-residue energy decompositions (13 revisions)
- 2020 Denovo tutorial 3 with PDBID 4F4P (13 revisions)
- CONGA Parameter List (13 revisions)
- Energy Scoring Method in Grid (13 revisions)
- BASH scripting (13 revisions)
- Server Administration (12 revisions)
- DOCK Release Objectives (12 revisions)
- De novo Benchmarking (12 revisions)
- 2018 Denovo design tutorial 2 with PDB 1C87 (12 revisions)
- 2018 RCR GROUP MEETING (12 revisions)
- DOCK DN Tutorials (11 revisions)
- Tutorials (11 revisions)
- Joint Group Meeting 2010 (11 revisions)
- Joint Group Meeting 2011 (11 revisions)
- Nonstandard residues prep (11 revisions)
- 2017 Denovo refine tutorial with PDB 1BJU (11 revisions)
- Stupid awk tricks (11 revisions)
- 3D Analog Library Generation Using Pubchem and Zinc (11 revisions)
- Activating your Seawulf Account (11 revisions)
- Compiling GROMACS on Cluster (10 revisions)
- Apply for cluster (10 revisions)
- 2010 LAB (10 revisions)
- PBS Queue (10 revisions)
- Ligand Enrichment Tutorial (10 revisions)
- MATLAB (9 revisions)
- Past Announcements (9 revisions)
- MPICH (9 revisions)
- DOCK Denovo (9 revisions)
- Unix (9 revisions)
- GRD-500 Integrity in Science (9 revisions)
- AutoDock Vina Pose Reproduction Tutorial (9 revisions)
- Chimera (9 revisions)
- Torsion environment (8 revisions)
- DOCK Denovo Refinement (8 revisions)
- Small Molecule Evolution (DOCK GA) (8 revisions)
- AutoDock4 Benchmark Results (8 revisions)
- DOCK Benchmarking (8 revisions)
- DOCK CV Benchmarking (8 revisions)
- Release (8 revisions)
- 2019 DOCK GA tutorial 1 with 2NNQ (7 revisions)
- MD Simulation: Protein in Water (Pt. 2) (7 revisions)
- MOE (7 revisions)
- DOCK VS Benchmarking (7 revisions)
- 2008 DOCK tutorial with Gleevec (7 revisions)
- 2022 AMBER tutorial 3 with PDBID 1X70 (7 revisions)
- Fragment Library Generation (7 revisions)
- DOCK GA Tutorials (7 revisions)
- De Novo Design (DOCK DN) (6 revisions)
- Example of an Input file (6 revisions)
- 2017 AMS-536 Spring (6 revisions)
- Dell 5110cn Printer (6 revisions)
- Legacy Info (6 revisions)
- Automated Families generation from the Protein Databank (6 revisions)
- TESTSET OBJECTIVES (6 revisions)
- Installing DOCK (5 revisions)
- Xmgrace (5 revisions)
- 2008-2009 LAB (5 revisions)
- Vi (5 revisions)
- 2008 AMS-535 Fall (5 revisions)
- NOVA (Navigation and Optimization for Virtual Assembly) (5 revisions)
- Joint Group Meeting 2007-2009 (5 revisions)
- Joint Group Meeting 2013 (5 revisions)
- 2017 Denovo design tutorial 1 with PDB 1BJU (5 revisions)
- Scp files from cluster to NYBlue (5 revisions)
- C Shell Scripting (5 revisions)
- DOCK GA Parameters (5 revisions)
- Rsync (5 revisions)
- VMD (5 revisions)
- 2009 RCR GROUP MEETING (5 revisions)
- Cluster compilations (5 revisions)
- DOCK GIST Parameters (5 revisions)
- SB2011 testset (4 revisions)
- 2008 AMS-536 Spring (4 revisions)
- SLURM (4 revisions)
- 2008 RCR GROUP MEETING (4 revisions)
- DOCK Abbreviations Guide (4 revisions)
- 2010 RCR GROUP MEETING (4 revisions)
- HIV/AIDS (4 revisions)
- 2009-2010 GRD-500 Fall-Spring (4 revisions)
- 2023 Denovo tutorial 3 with PDBID 2P16 (4 revisions)
- DOCK CV Tutorials (4 revisions)
- 2009 DOCK tutorial with neuraminidase (4 revisions)
- Semester Checklist (4 revisions)
- LoadLeveler Chain Jobs (4 revisions)
- 2018 (3 revisions)
- Setting up RSA SecureID token (3 revisions)
- 2008 AMBER tutorial (3 revisions)
- Example of an Single Molecule Evolution Input file (3 revisions)
- Benchmarking (3 revisions)
- 2021 Denovo tutorial 2 with PDBID 2ZD1 (3 revisions)
- SDF to mol2 (3 revisions)
- 2008 DOCK tutorial with 1LAH (3 revisions)
- AMS-532 Guidlines (3 revisions)
- BlueGene (3 revisions)
- Developer's Info (3 revisions)
- 2012 GRD-500 Spring (3 revisions)
- Joint Group Meeting 2012 (3 revisions)
- RGD (3 revisions)
- Fourier fit (3 revisions)
- R - Statistical Computing (3 revisions)
- 2009 AMBER tutorial with Trpcage (3 revisions)
- Unix find (3 revisions)
- AutoDock Vina Benchmark Results (3 revisions)
- DOCK CV Input File(s) (3 revisions)
- Rotation students Wiki (3 revisions)
- Example of an CONGA Input file (3 revisions)
- General Dock Utilities (3 revisions)
- Advanced Dock Utilities/Information (3 revisions)
- Parameter List/Explanations (2 revisions)
- Valgrind (2 revisions)
- Genion.mdp (2 revisions)
- Amber to mol2 (protein) (2 revisions)
- 2010-2011 GRD-500 Fall-Spring (2 revisions)
- Get Job ids to use for llcancel (2 revisions)
- Testset Protocols (2 revisions)
- DOCK DN Parameters (2 revisions)
- ZINC Database (2 revisions)
- No t4 step1 inputgen.bash (2 revisions)
- Ps.m2p (2 revisions)
- DOCK DN Utilities (2 revisions)
- Getting a BNL Account (2 revisions)
- AMS-532: Lab Rotations/Journal Club Guidelines (2 revisions)
- Virtual Screening SOP (2 revisions)
- Footprint Plot Visualization (2 revisions)
- Ubq min.mdp (2 revisions)
- Pylab (2 revisions)
- Ubq npt.mdp (2 revisions)
- Ubq nvt.mdp (2 revisions)
- CONGA (2 revisions)
- Sphere Generation (2 revisions)
- Making images for publication using vmd (2 revisions)
- CVS Commands (2 revisions)
- DOCK CV Development Goals (2 revisions)
- 2017 Denovo refinement tutorial with PDB 1BJU (2 revisions)
- Method development (2 revisions)
- 2009 AMS-536 Spring (2 revisions)
- Ethernet Cables (2 revisions)
- Gdb (GNU Debugger) (2 revisions)
- Sed - Stream Editor in Unix (2 revisions)
- DOCK Compilation (2 revisions)
- 2017a DOCK tutorial (2 revisions)
- NAMD on Seawulf (2 revisions)
- De Novo Design (2 revisions)
- Example of an Ensemble Evolution Input file (2 revisions)
- 2011 GRD-500 Spring (2 revisions)
- 2016 DOCK tutorial with Thrombin (1 revisions - redirect page)
- NAMD to mol2 (1 revisions)
- 2020 DOCK tutorial 1 with PDBID XXXX (1 revisions)
- Restraint01.pdb (1 revisions)
- TIMD integration.py (1 revisions)
- BOSS Pure Liquid Simulation (1 revisions - redirect page)
- Clustering in R (1 revisions)
- DOCK Installation (1 revisions)
- Installing MSMS for VMD (1 revisions)
- NAMD tutorial (1 revisions)
- Restraint04.pdb (1 revisions)
- AMBER tricks (1 revisions)
- TIMD integration prep.py (1 revisions)
- BOSS Pure Liquid Simulation Notes (1 revisions)
- ZINC12 Database (1 revisions)
- Coming Soon (1 revisions)
- DOCK DN Input File(s) (1 revisions)
- DOCK NOVA (1 revisions)
- De Novo Design (previously NOVA) (1 revisions)
- Integration.pl (1 revisions)
- NOVA (1 revisions)
- Pdb to mol2 (1 revisions)
- Rigid.in (1 revisions)
- Setting up insurance through Research Foundation (1 revisions)
- AMBER tutorial (1 revisions - redirect page)
- Amber to pdb (1 revisions)
- Vi tutorial (1 revisions - redirect page)
- BOSS pure liquid simulation (1 revisions - redirect page)
- Common Errors - ctrl M (1 revisions)
- Example scripts (1 revisions)
- Get time estimate for free blocks (1 revisions)
- MD of Protein in Water (1 revisions - redirect page)
- Rizzo Lab-specific Information and Tutorials (1 revisions - redirect page)
- Setup ssh tunnel to NYBlue fen (1 revisions)
- AMBER tutorial with Trpcage (1 revisions - redirect page)
- Analog Library - Pubchem & Zinc (1 revisions)
- Compiling Applications for BG/L (1 revisions)
- DOCK Tutorial with 1LAH (1 revisions - redirect page)
- De novo DOCK (1 revisions)
- Families in the Protein Databank (1 revisions)
- Get time for job completion (1 revisions)
- Rizzo Lab Contact Information (1 revisions - redirect page)
- Showbox.in (1 revisions)
- Binding Footprint Program (1 revisions)
- Flex.in (1 revisions)
- MOE Tutorial (1 revisions - redirect page)
- No t4 step2 equiprod.bash (1 revisions)
- Ptraj (1 revisions)
- 2020 DOCK tutorial 4 with PDBID XXXX (1 revisions)
- Showsph.in (1 revisions)
- Ubq md.mdp (1 revisions)
- Announcements: Fall 2013 (1 revisions)
- Blocked Standard Error of the Mean (1 revisions)
- Config (1 revisions)
- DOCK DN Utilities/Info (1 revisions)
- Ghostscript (1 revisions)
- No t4 step2 min.bash (1 revisions)
- Pure Liquid Simulation (1 revisions - redirect page)
- Sampling Methods (1 revisions)
- Simple Protein in Water MD (1 revisions - redirect page)
- Apply for NYBlue (1 revisions)
- Visiting BNL (1 revisions)
- 2010 GRD-500 Spring (1 revisions)
- Gnuplot (1 revisions)
- No t4 step3 inputgen.bash (1 revisions)
- 2020 Denovo tutorial 2 with PDBID 2GQG (1 revisions)
- Slick awk tricks (1 revisions)
- Vmd.rmsd.csh (1 revisions)
- BlueGene LoadLeveler Jobs with Multiple Steps (Chain Jobs) (1 revisions - redirect page)
- 01mi.in (1 revisions)
- DOCK VS Parameters (1 revisions)
- 2008 Spring (1 revisions)
- Formatting your Thesis (1 revisions)
- Grid.in (1 revisions)
- Archiving old data (1 revisions)
- Ways to remove the first line (1 revisions)
- 04md.in (1 revisions)
- Journal Articles from UCSF (1 revisions)
- Make surface (1 revisions)
- Octave (1 revisions)
- 2023 DOCK tutorial 3 with PDBID 5UPG (1 revisions - redirect page)
- AMS-532 Laboratory Rotations and Journal Club in Computational Structural Biology (1 revisions - redirect page)
- Which Unix Distribution? (1 revisions)
- CONGA (CONstruction by Genetic Algorithm) (1 revisions)
- DOCK GA Developer Progress (1 revisions)
- 2006-2007 AMS-532 Fall-Spring (1 revisions)
- DOCK VS Utilities (1 revisions)
- Disulfide.txt (1 revisions)
- Hello World (1 revisions - redirect page)
- Lab-designed code and programs (1 revisions)
- 2017 Denovo design tutorial with PDB 1BJU (1 revisions)
- Making images for publication (1 revisions)
- Optimize Polar Hydrogens (1 revisions)
- Reference.vmd.script (1 revisions)
- Unix Tutorial (1 revisions - redirect page)
- Wiki Editing (1 revisions)
- 2007-2006 AMS-532 Fall-Spring (1 revisions - redirect page)
- DOCK VS Utilities/Info (1 revisions)
- Drug-like organic molecules (1 revisions)
- 2011-2012 GRD-500 Fall-Spring (1 revisions)
- Free Energy of Hydration Test-set (1 revisions - redirect page)
- Histograms in R (1 revisions)
- Lab-specific Information and Tutorials (1 revisions - redirect page)
- Other Meetings (1 revisions)
- Rizzo Lab Wiki (1 revisions - redirect page)
- Seawulf Programs Needed (1 revisions)
- With t4 step1 inputgen.bash (1 revisions)
- DOCK GA Input File(s) (1 revisions)
- 2007-2008 AMS-532 Fall-Spring (1 revisions)
- DOCK tutorial (1 revisions - redirect page)
- Lab-specific Tutorials (1 revisions - redirect page)
- Outdated Info (1 revisions)
- Remove waters from trajectories (1 revisions)
- Robert C. Rizzo Research Group (1 revisions - redirect page)
- 2022 Covalent docking tutorial updated with PDB xxxx (1 revisions)
- Secure Shell (ssh) (1 revisions)
- Submitting BleuGene Jobs (1 revisions - redirect page)
- AMS 532: Lab Rotations/Journal Club Guidelines (1 revisions - redirect page)
- Using Small Ligands with AMBER, complete tutorial (1 revisions - redirect page)
- With t4 step2 equiprod.bash (1 revisions)
- DOCK GA Parameter List (1 revisions)
- 2007-2009 (1 revisions - redirect page)
- DOCK tutorial with 1LAH (1 revisions - redirect page)
- INSPH (1 revisions)
- Min.mdp (1 revisions - redirect page)
- Rename files in Unix (1 revisions)
- Submitting BlueGene Jobs (1 revisions)
- Using convert command unix (1 revisions)
- With t4 step2 min.bash (1 revisions)
- Cancer (1 revisions)
- 2008-2007 AMS-532 Fall-Spring (1 revisions - redirect page)
- DOCK tutorial with Gleevec (1 revisions - redirect page)
- Example Input Files (1 revisions)
- General Dock Development Goals (1 revisions)
- Influenza (1 revisions)
- PDFCreator (1 revisions)
- Research Foundation (1 revisions)
- AMBER Lipid Tutorials (1 revisions)
- Advanced Dock Utilities (1 revisions)
- Automated Family generation from PDB (1 revisions)
- With t4 step3 inputgen.bash (1 revisions)
- 2008-2009 (1 revisions - redirect page)
- DOCK tutorial with neuraminidase (1 revisions - redirect page)
- Input for md (1 revisions - redirect page)
- Input for min (1 revisions - redirect page)
- Restraint.vmd.script (1 revisions)
- Run.java.csh (1 revisions)
- Sequence alignment (1 revisions)
- TIMD extraction.py (1 revisions)
- VMD tutorial (1 revisions - redirect page)
- X-Win32 (1 revisions)
- DOCK DN Benchmarking (1 revisions)
- 2008-2009 AMS-532 Fall-Spring (1 revisions)
- 2010 (1 revisions - redirect page)
- General Dock Utilities/Info (1 revisions)
