Software

A collection of published articles on different bioinformatics software.

Latest Software News

VISPR- A new tool to visualize CRISPR screening experiments

As CRISPR/Cas9 is a well-known genome editing technology, it is important to…

Tariq Abdullah

RNAdetector- New Tool for RNA-Seq Data Analysis

In this article, we discuss a new tool that is developed for…

Tariq Abdullah

Easy installation of GROMACS on Ubuntu 18.04 & 20.04

We have provided several articles on GROMACS installation on Ubuntu including the…

Dr. Muniba Faiza

FEGS- A New Feature Extraction Model for Protein Sequence Analysis

Protein sequence analyses include protein similarity, Protein function prediction, protein interactions, and…

Tariq Abdullah

How to install sdsorter on Ubuntu (Linux)?

sdsorter is a tool that helps in the easy manipulation of SDF…

Dr. Muniba Faiza

Installing Anaconda3 on Ubuntu (Linux)

Anaconda is an open-source toolkit that is useful in programming and machine…

Tariq Abdullah

Where to find Docking and MD simulation software?

Docking and simulation are two of the methods that are most widely…

Dr. Muniba Faiza

IPD2.0- An Updated Version of IPD to Analyze the SARS-CoV-2 Genome

IPD2.0 is an updated version of the Infectious Pathogen Detector (IPD) .…

Tariq Abdullah

Installing Pycharm on Ubuntu (Linux)

Pycharm is an integrated development environment (IDE) for developers. It combines Python…

Tariq Abdullah

Installing RDPTools on Ubuntu (Linux)

RDP provides analysis tools called RDPTools. These tools are used to high-throughput…

Dr. Muniba Faiza

MOCCA- A New Suite to Model cis- regulatory Elements for Motif Occurrence Combinatorics

cis-regulatory elements are DNA sequence segments that regulate gene expression. cis-regulatory elements…

Tariq Abdullah

Tutorial: Basic Bioinformatics Software Installation on Ubuntu (Linux)

In this article, we are going to install some basic bioinformatics tools…

Dr. Muniba Faiza

Most widely used tools for drug-drug interaction prediction

Drug-drug interaction is an important method in bioinformatics, especially in the case…

Dr. Muniba Faiza

Most widely used tools for transcription factor binding site prediction

In this article, we summarize the most widely used tools (online/ standalone)…

Tariq Abdullah

EzMAP- A New Platform for Microbiome Analysis

A new bioinformatics tool called "EzMAP" is developed for the easy analysis…

Dr. Muniba Faiza

Installing SAMtools on Ubuntu

SAMtools is a software package for high-throughput sequencing data analysis . It…

Tariq Abdullah

Installing PANDAseq on Ubuntu

PANDAseq is a bioinformatics tool that aligns paired-ends of Illumina sequences .…

Dr. Muniba Faiza

Alvis- A New Tool for Alignment & Visualization of Contigs & Reads and Chimera Detection

Visualization of running alignments of reads and contigs facilitates easy analysis and…

Tariq Abdullah

Method-2: Installing GROMACS on Ubuntu 20.04 with CUDA GPU Support

We have provided a tutorial on installing GROMACS on Ubuntu with CUDA…

Dr. Muniba Faiza

Installing TopHat2 on Ubuntu

TopHat is one of the most widely used tools for RNA-seq reads…

Dr. Muniba Faiza