Protein-ligand interaction analysis using LigPlot+
In our last article, we explained the installation of LigPlot+ on Ubuntu.…
How to install DeepView-Swiss PDB Viewer on Linux?
DeepView (Swiss-PDB Viewer) is used to analyze multiple proteins simultaneously. Protein structure…
MGL Tools & Autodock Vina installation: Frequently Asked Questions and Answers
I have received several e-mails from researchers and students alike regarding installing…
Sequence search against a set of local sequences (local database) using phmmer
PHMMER is a sequence analysis tool used for protein sequences (http://hmmer.org; version…
A guide on how to read the research articles
Reading a research article could be a problem for students starting their…
Autodock VinaXB for molecular docking of protein complexes containing halogen bonding interactions
Molecular docking is the most widely used technique which is used to…
How to cluster peptide/protein sequences using cd-hit software?
Cd-hit is one of the most widely used programs to cluster biological…
Most widely used tools to analyze multiple sequence alignments
Multiple sequence alignments (MSAs) are quite valuable in terms of studying new…
Installing MODELLER on Linux/Ubuntu
MODELLER is a software package that is used to predict protein three-dimensional…
How to read fasta sequences from a file using PHP?
Here is a simple function in PHP to read fasta sequences from…
How to extract fasta sequences from a multi-fasta file based on matching headers in a separate file?
This is a simple Perl script to extract FASTA sequences from a…
How to read fasta sequences as hash using perl?
This is a simple Perl script to read a multifasta file as a…
How to create a pangenome of isolated genome sequences using Roary and Prokka?
Roary is a pangenome genome pipeline, which calculates pangenome of a set…
Tutorial: Vina Output Analysis Using PyMol
The analysis of Autodock Vina results is a bit tricky in the…
Raccoon2: A GUI facilitating virtual screenings with Autodock and Autodock Vina
In the previous article, a new plugin called 'Raccoon' was mentioned, which…
McPAS-TCR: A database of TCR sequences associated with pathology and antigens
T-cells, also known as T-lymphocytes, play important role in the cell-mediated immune…
Algorithm and workflow of miRDB
As mentioned in the previous article, Micro RNAs (miRNAs) are the short endogenous…
Web-based tools for protein-peptide docking
Protein-protein interactions are considered necessary in interactome analysis as they play an…
A new high-level Python interface for MD simulation using GROMACS
The roots of the molecular simulation application can be traced back to…
How to execute Unix/shell commands in a Perl script?
BioPerl is a collection of Perl modules that are used to write…