All articles
- Integration.pl
- Joe and Brian de novo stuff
- Joint Group Meeting 2007-2009
- Joint Group Meeting 2010
- Joint Group Meeting 2011
- Joint Group Meeting 2012
- Joint Group Meeting 2013
- Journal Articles from UCSF
- Lab-designed code and programs
- Lab-specific Information and Tutorials
- Lab-specific Tutorials
- Lab SOP
- Legacy Info
- LoadLeveler Chain Jobs
- MATLAB
- MD Simulation: Protein in Water
- MD Simulation: Protein in Water (Pt. 2)
- MD of Protein in Water
- MOE
- MOE Tutorial
- MPICH
- Main Page
- Make Unique script usage
- Make surface
- Making images for publication
- Making images for publication using vmd
- Method development
- Min.mdp
- NAMD Amber inputs
- NAMD on Seawulf
- NAMD to mol2
- NAMD tutorial
- NOVA
- NOVA (Navigation and Optimization for Virtual Assembly)
- No t4 step1 inputgen.bash
- No t4 step2 equiprod.bash
- No t4 step2 min.bash
- No t4 step3 inputgen.bash
- Nonstandard residues prep
- Octave
- Optimize Polar Hydrogens
- Other Meetings
- Outdated Info
- PBS Queue
- PDFCreator
- Parameter List
- Parameter List/Explanations
- Past Announcements
- Pdb to mol2
- Per-residue energy decompositions
- Pose Reproduction
- Pose Reproduction SB2024 V1 DOCK6.10 A
- Ps.m2p
- Ptraj
- Pure Liquid Simulation
- Pylab
- RGD
- R - Statistical Computing
- Reference.vmd.script
- Release
- Remove waters from trajectories
- Rename files in Unix
- Research Foundation
- Restraint.vmd.script
- Restraint01.pdb
- Restraint04.pdb
- Rigid.in
- Ringo.ams.stonybrook.edu
- Rizzo Lab-specific Information and Tutorials
- Rizzo Lab Contact Information
- Rizzo Lab Downloads
- Rizzo Lab General Information for Lab Members
- Rizzo Lab Information and Tutorials
- Rizzo Lab Members and Contact Information
- Rizzo Lab Publications
- Rizzo Lab Research
- Rizzo Lab Weekly Group Meetings
- Rizzo Lab Wiki
- Robert C. Rizzo Research Group
- Rotation students Wiki
- Rsync
- Run.java.csh
- SB2010
- SB2011 testset
- SB2012
- SB2021.v1
- SDF to mol2
- SLURM
- Sampling Methods
- Scoring Functions
- Scp files from cluster to NYBlue
- Seawulf Cluster Assessment
- Seawulf Items Needed
- Seawulf Programs Needed
- Secure Shell (ssh)
- Sed - Stream Editor in Unix
- Semester Checklist
- Sequence alignment
- Server Administration
- Setting up RSA SecureID token
- Setting up insurance through Research Foundation
- Setup ssh tunnel to NYBlue fen
- Showbox.in
- Showsph.in
- Simple Protein in Water MD
- Slick awk tricks
- Small Molecule Evolution (DOCK GA)
- Sphere Generation
- Stony Brook Joint Group Meetings in Computational Structural Biology
- Stonybrook
- Stupid awk tricks
- Submitting BleuGene Jobs
- Submitting BlueGene Jobs
- TESTSET OBJECTIVES
- TIMD extraction.py
- TIMD integration.py
- TIMD integration prep.py
- Test Page
- Test Set Construction
- Test Set Construction SB2024 V1 DOCK6.10 A
- Test Set Tutorial
- Test Set Tutorial V1
- Testset Objectives
- Testset Protocols
- Torsion environment
- Tutorials
- Ubq md.mdp
- Ubq min.mdp
- Ubq npt.mdp
- Ubq nvt.mdp
- Unix
- Unix Tutorial
- Unix find
- Useful Slurm Commands
- Using Small Ligands with AMBER, complete tutorial
- Using convert command unix
- VMD
- VMD tutorial
- Valgrind
- Vi
- Vi tutorial
- Virtual Screening Compound Ordering SOP
- Virtual Screening Protocol
- Virtual Screening Protocol on BlueGene (IGF-IR system)
- Virtual Screening SOP
- Visiting BNL
- Vmd.rmsd.csh
- Ways to remove the first line
- Which Unix Distribution?
- Wiki Editing
- With t4 step1 inputgen.bash
- With t4 step2 equiprod.bash
- With t4 step2 min.bash
- With t4 step3 inputgen.bash
- X-Win32
- Xmgrace
- ZINC12 Database
- ZINC15 Database
- ZINC Database
