The output files obtained as a result of virtual screening (VS) using Autodock Vina may be large in number. It is difficult or quite impossible to...
Antigen-antibody interactions play an important role in protecting our body from foreign molecules. This is applied in vaccine development against a disease. In this article, we...
BLAST stands for Basic Local Alignment Search Tool. It is a local alignment algorithm-based tool that is used for aligning multiple sequences and to find similarity...
In this article, we are going to install some basic bioinformatics tools on Ubuntu from the repository. These tools include BLAST, HMMER, MUSCLE, MAFFT, several NGS...
Drug-drug interaction is an important method in bioinformatics, especially in the case of treatment of serious diseases such as cancer. It tells us about the drug...
Bismark is bioinformatics to map bisulfite treated sequencing reads and to perform methylation calls [1]. In this article, we are going to extract methylation information from...
A new bioinformatics tool called “EzMAP” is developed for the easy analysis of the microbiome [1]. EzMAP stands for an easy microbiome analysis platform.
PANDAseq is a bioinformatics tool that aligns paired-ends of Illumina sequences [1]. In this article, we are going to install PANDAseq on Ubuntu.
Drafting a manuscript could be a difficult task for beginners in the field of research. In this article, we will provide a few tips for how...
If you are a beginner in the field of bioinformatics, you must have heard of the term “virtual screening” (VS). In this article, we will discuss...
We have provided a tutorial on installing GROMACS [1] on Ubuntu with CUDA GPU support. The methods may vary depending upon the requirements of your system....
TopHat is one of the most widely used tools for RNA-seq reads to map splice junction [1]. It uses Bowtie to align mammalian genomes. The older...
Besides, Python & Perl, PHP is another language mostly used in bioinformatics programming. In this article, we provide a simple command to execute shell commands in...
Bismark is a bioinformatics tool to map bisulfite treated sequencing reads to a genome [1]. It also determines cytosine methylation sites. In this article, we will...
Generating the topology of small molecules/ligands is an important step in molecular dynamics (MD) Simulation. We explained it in previous articles as part of MD simulation...
GROMACS [1] offers a vast range of functions when it comes to molecular dynamics simulation. Today, we are going to explore it for the simulation of...
In this tutorial, we are performing MD simulation in mixed solvents of methanol and water using GROMACS [1,2]. You can follow our previous articles for MD...
This is a continuation article of our previous post: Tutorial-I: Functional Divergence Analysis using DIVERGE 3.0 software. In our last tutorial, we explained Type-II functional divergence....
DIVERGE is a tool to detect functional divergence between member genes of a protein family based on (site-specific) shifted evolutionary rates after gene duplication or speciation...
A new webserver called DISTEVAL [1] is developed that evaluates the predicted protein distances. This web server evaluates the inter-residue distances and offers several other features...
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