Extracting first and last residue from helix file in DSSP format.
Previously, we have provided a tutorial on using dssp_parser to extract all…
How to extract x,y,z coordinates of atoms from PDB file?
The x, y, and z coordinates of atoms are provided in the…
dssp_parser: A new Python package to extract helices from DSSP files.
A new Python package named 'dssp_parser' is developed to parse DSSP files.…
How to calculate center of mass of a protein structure using Python script?
Here is a Python script that helps you calculate the center of…
How to sort binding affinities based on a cutoff using vs_analysis.py script?
Previously, we have provided a Python script (vs_analysis.py) to analyze the virtual…
sminalog_analysis.py – A new Python script to fetch top binding affinities from SMINA log file
In one of our previous posts, we provided a Python script for…
Installing Pycharm on Ubuntu (Linux)
Pycharm is an integrated development environment (IDE) for developers. It combines Python…
vs_Analysis.py: A Python Script to Analyze Virtual Screening Results of Autodock Vina
The output files obtained as a result of virtual screening (VS) using…
How to execute Unix/shell commands in PHP?
Besides, Python & Perl, PHP is another language mostly used in bioinformatics…
How to search for a specific character in a file using Python?
In this article, a simple python script is provided that can be…
Nested SQL queries and aggregate functions for complex information retrieval from a database
In one of our previous articles, we have mentioned a few basic…
Basic SQL Queries to Create and Retrieve Information from a Database
In this article, basic SQL queries are described to create, update, drop,…
Some common awk bash commands to modify multi-FASTA files
Some basic operations on multi-FASTA sequence files is a tedious task without…
Extract FASTA sequences based on sequence length using Perl
Here are simple Perl scripts to filter out FASTA sequences from a…
Operations on FASTA files using Perl, PHP, and Bash commands
We have published various articles on bioinformatics programming dealing with large files…
Modifying multi-FASTA files using Bash: ‘Sed’ Command
Dealing with thousands of FASTA sequences is a tedious task without using…
Perl script to find duplicate FASTA sequences using their header?
In a large file of FASTA sequences, it is nearly impossible to…
How to perform graph-based clustering of peptide/protein sequences using MCL?
Markov Cluster Algorithm (MCL) is a clustering algorithm that clusters networks .…
How to concatenate FASTA sequences using Perl?
Here is a simple Perl script to concatenate multiline FASTA sequences into…
How to search motif pattern in FASTA sequences using Perl hash?
Here is a simple Perl script to search for motif patterns in…