Tools

A collection of articles explaining installation and usage of different bioinformatics tools.

Latest Tools News

[Tutorial] Installing BBTools on Ubuntu (Linux).

BBTools is a suite consisting of various bioinformatics tools for DNA and…

Dr. Muniba Faiza

[Tutorial] Installing Exabayes on Ubuntu (Linux).

ExaBayes is a software tool designed for large-scale Bayesian phylogenetic inference .…

Dr. Muniba Faiza

How to see ligand interactions and label residues in DS Visualizer?

Discovery Studio (DS) Visualizer is a powerful molecular modeling tool widely used…

Dr. Muniba Faiza

[Tutorial] How to install openbabel on Ubuntu (Linux)?

Open Babel is an open-source chemical toolbox for molecular modeling and cheminformatics…

Dr. Muniba Faiza

How to Fix Broken Vina Docked Output in DS Visualizer: A Step-by-Step Guide

Molecular docking is a crucial method in computational drug discovery, allowing researchers…

Dr. Muniba Faiza

How to install & execute Discovery Studio Visualizer on Ubuntu (Linux)?

DS Visualizer is a comprehensive, free molecular modeling and visualization tool designed…

Dr. Muniba Faiza

[Tutorial] Installing HTSlib on Ubuntu (Linux).

HTSlib is an open-source C library designed for handling high-throughput sequencing (HTS)…

Dr. Muniba Faiza

List of widely used MD Simulation Analysis Tools.

Molecular Dynamics (MD) simulation analysis involves interpreting the vast amounts of data…

Dr. Muniba Faiza

[Tutorial] Installing ProteStAr on Ubuntu (Linux).

ProteStAr is a bioinformatics tool to compress protein structure files . It…

Dr. Muniba Faiza

[Tutorial] How to install 3Dmapper on Ubuntu (Linux)?

Understanding the relationship between genes and proteins is crucial for elucidating biological…

Dr. Muniba Faiza

CMake installation and upgrade: What worked & what didn’t?!

CMake is a widely used cross-platform build system that automates the process…

Dr. Muniba Faiza

Free_Energy_Landscape-MD: Python package to create Free Energy Landscape using PCA from GROMACS.

In molecular dynamics (MD) simulations, a free energy landscape (FEL) serves as…

Dr. Muniba Faiza

VS_Analysis: A Python package to perform post-virtual screening analysis

Virtual screening (VS) is a crucial aspect of bioinformatics. As you may…

Dr. Muniba Faiza

vs_interaction_analysis.py: Python script to perform post-virtual screening analysis

Analyzing the results of virtual screening (VS) performed with Autodock Vina can…

Dr. Muniba Faiza

How to install Interactive Genome Viewer (IGV) & tools on Ubuntu?

Interactive Genome Viewer (IGV) is an interactive tool to visualize genomic data…

Dr. Muniba Faiza

[Tutorial] Installing VIAMD on Ubuntu (Linux).

Visual Interactive Analysis of Molecular Dynamics (VIAMD) is a tool that allows…

Dr. Muniba Faiza

[Tutorial] Performing docking using DockingPie plugin in PyMOL.

DockingPie is a PyMOL plugin to perform computational docking within PyMOL .…

Dr. Muniba Faiza

How to install the DockingPie plugin on PyMOL?

DockingPie is a plugin of PyMOL made to fulfill the purpose of…

Dr. Muniba Faiza

How to predict binding pocket/site using CASTp server?

The CASTp server allows you to predict the binding sites in a…

Dr. Muniba Faiza

Video Tutorial: Calculating binding pocket volume using PyVol plugin.

This is a video tutorial for calculating binding pocket volume using the…

Dr. Muniba Faiza