MD Simulation &Methodology DocAutomation
Transform raw PDB structures into completed GPU trajectories and journal-grade academic Methodology Docs (.docx). Built for students, pharmaceutical researchers, and structural biologists.
Enterprise Biophysics Pipeline Built for Speed
From free CPU physics verification to automated journal-ready Methodology Docs (.docx), our autonomous engine eliminates weeks of manual command-line troubleshooting.
Free CPU Pre-Flight Physics Guard
Every PDB structure undergoes CPU-level integrity inspection and a 500-step energy minimization test before payment. Missing atoms are auto-repaired, ensuring your run will never explode on the GPU.
Dedicated RTX 4090 GPU Cluster
Automated system parameterization with AMBER ff14SB and TIP3P periodic water boxes. High-throughput leap-frog MD integration with GPU-PME delivering 150+ nanoseconds per day.
Academic Methodology Doc (.docx)
Receive a formal, publication-standard Materials & Methods chapter written in formal academic prose. Includes peer-reviewed software citations, force field parameters, and embedded figures.
300 DPI Journal Plots & PyMOL Trajectories
Clean, vector-styled 300 DPI plots automatically parsed from raw GROMACS XVG energy and coordinate matrices: Backbone RMSD vs. time, per-residue C-alpha RMSF, structural compactness (Radius of Gyration), and inter-chain hydrogen bonds.
Cloudflare R2 Direct Downloads
Every deliverable package (.zip) is securely stored on Cloudflare R2 and served across 300+ global edge locations. High-speed 1-click downloads with zero egress latency.
Looking for quick lab math or structure validation?
We moved all 30 client-side and cloud-compute tools into a dedicated, high-speed ecosystem. From Ramachandran plotters and ligand auditors to Lipinski filters and 3D coordinate converters — 100% free with zero login required.
About Me
Hi, I'm Abir Opu. I'm a pharmacy student at Jahangirnagar University, passionate about making computational biophysics and molecular simulation faster, cleaner, and accessible to every student and researcher.
Why I built InSilicoDoc
I know the struggle of trying to run complex GROMACS trajectories on low-spec laptops or wrestling with software that costs thousands of dollars. I built InSilicoDoc to eliminate those barriers. Every student deserves to produce publication-grade MD simulations and formal academic Methodology Docs without spending months debugging command-line scripts.
I've had the privilege to share my passion for science and technology on national television, including Bangladesh Television (BTV) and Nexus TV. Those experiences proved how eager researchers and students are for simpler, modern scientific workflows.
National television appearance on BTV — discussing science education and technology.
On set at Nexus TV with the team — discussing technology, science, and the future of education.
Not gatekeeping research.
I'm not trying to gatekeep science. I'm a student building the tools I wish I had on day one. Whether you're preparing a course assignment or submitting to a peer-reviewed journal, I hope these tools accelerate your discovery.
And BRICM — the most prestigious scientific research institution in Bangladesh — showed me how critical accessible computational tools are for scientific progress.
