Guides and tutorials
Computational life sciences, explained step by step.
Real commands, real parameters, and the errors that actually catch people out. Written by researchers who use these tools.
Career Guide 15 Computational Biology Project Ideas for MSc & Final-Year Students (Docking + MD) 15 free computational biology project ideas (docking + MD) for MSc and final-year students. See what each proves to a PI and… Dr. Abdul Rajjak Shaikh 12 min read Updated Molecular Modeling Best Free Molecular Docking Software for Students (2026) Compare the best free molecular docking software for students in 2026 (AutoDock Vina, SwissDock, DiffDock). See costs, GPU needs and where to… Dr. Abdul Rajjak Shaikh 9 min read Updated Molecular Modeling Best Free Molecular Dynamics Software: GROMACS vs AMBER vs NAMD vs OpenMM (2026) Compare GROMACS, AMBER, NAMD, OpenMM and LAMMPS on license, GPU, and beginner-friendliness. See the best free MD engine for students and start… Dr. Abdul Rajjak Shaikh 9 min read Updated Molecular Modeling Molecular Docking vs Molecular Dynamics: What’s the Difference and Which Should You Learn First? Docking predicts where a molecule binds; molecular dynamics simulates how the complex moves. Key differences, when to use each, and which to… Dr. Abdul Rajjak Shaikh 9 min read Updated Material Science What Is Density Functional Theory (DFT)? A Beginner’s Guide A clear beginner's guide to density functional theory (DFT), how it predicts material and molecular properties from electron density, and how to… Dr. Abdul Rajjak Shaikh 6 min read Updated Molecular Modeling What Is Molecular Docking? A Beginner’s Guide A beginner's guide to molecular docking: what it is, how it predicts protein-ligand binding, why it matters for drug discovery, and how… Dr. Abdul Rajjak Shaikh 8 min read Updated Bioinformatics What Is Sequence Alignment? A Beginner’s Guide for Bioinformatics Learn what sequence alignment is, how pairwise and multiple alignment work, how scoring and gaps are handled, and the beginner tools used… Dr. Abdul Rajjak Shaikh 8 min read Updated Engineering Design What Is Finite Element Analysis (FEA)? A Beginner’s Guide A beginner's guide to finite element analysis (FEA): what it is, how meshing and the math work, the workflow, and the tools… Dr. Abdul Rajjak Shaikh 8 min read Updated Bioinformatics What Is a Protein Binding Site? A Beginner’s Guide Learn about protein binding sites, their types (active, allosteric), and how computational tools identify them for drug design and molecular modeling. Dr. Abdul Rajjak Shaikh 8 min read Updated Bioinformatics PCR Explained: Principles, Steps & Troubleshooting Guide (2025-26) PCR is the workhorse of molecular biology. This beginner-friendly guide breaks down the science, the steps, and how to fix common errors… Dr. Abdul Rajjak Shaikh 12 min read Updated
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