Sequence Analysis
FEGS- A New Feature Extraction Model for Protein Sequence Analysis

Protein sequence analyses include protein similarity, Protein function prediction, protein interactions, and so on. A new feature extraction model is developed for easy analysis of protein sequences.
This extraction model is known as FEGS (Feature Extraction based on Graphical and Statistical features) [1]. It represents protein sequences graphically based on their physicochemical properties and statistical features. By using these two properties/features, FEGS transforms a protein sequence into a 578-dimensional numerical vector.
How does FEGS work?
After taking protein sequences as input, FEGS starts building 158 space curves for the next protein sequence. After that, it builds L/L matrices and calculates normalized maximum eigenvalues. In the third step, it calculates the frequency of 20 amino acids and 400 dipeptides present in the sequence. It ultimately provides a frequency vector of that protein sequence. In the fourth step, it develops a feature vector of the sequence. It can later be subjected to phylogenetic analysis.
FEGS is a user-friendly software and freely downloadable on Sourceforge at https://sourceforge.net/projects/transcriptomeassembly/files/Feature%20Extraction/. FEGS’s performance has been tested on five different protein sequence datasets and it has shown the best performance amongst the other existing methods.
For more information, read here.
References
- Mu, Z., Yu, T., Liu, X. et al. (2021). FEGS: a novel feature extraction model for protein sequences and its applications. BMC Bioinformatics 22, 297.
Sequence Analysis
HMMER- Uses & Applications

HMMER [1] is a well-known bioinformatics tool/software. It offers a web server and a command-line tool for users. Here are some additional applications of HMMER. (more…)
Sequence Analysis
Easy installation of some alignment software on Ubuntu (Linux) 18.04 & 20.04

There are commonly used alignment programs such as muscle, blast, clustalx, and so on, that can be easily installed from the repository. In this article, we are going to install such software on Ubuntu 18.04 & 20.04. (more…)
Sequence Analysis
Installing RDPTools on Ubuntu (Linux)

RDP provides analysis tools called RDPTools. These tools are used to high-throughput sequencing data including single-strand, and paired-end reads [1]. In this article, we are going to install RDPTools on Ubuntu (Linux). (more…)
You must be logged in to post a comment Login