Detecting contamination in NGS data and multi-species analysis

🌠 Easily download genomes and build BLAST/Bowtie indexes in Python

Tutorials for the crisprVerse

A computational toolkit of fast and automatical identification of back-splice junctions of potential circular RNAs (circRNAs) from RNA-seq data.

Analyzing shotgun data

VAP : For Reference mapping and Variant detection.

Bowtie-based alignment of CRISPR gRNA spacer sequences

🔬 A replication of ChiP-Seq analysis from an experiment regarding gene induction and repression during terminal erythropoiesis that are mediated by distinct epigenetic changes

Code designed to run on Atom Computer's Tinker Tie. http://atomcomputer.us/tinkertie/

The project for the course "Web Information Retrieval"

Docker to run TopHat for splice junction mapping

A theme for Bowtie with a big 600px cover and CSS flip animation.

Different approaches to calculate mappability and GC-rich tracks for danio rerio genomes

Expanded version of the traditional Smith Waterman algorithm for local alignment

This repository contains my end-of-degree project. I've implemented a simple version of three of the most known aligners like Bowtie, BWA and BWT-SM

A reproducible RNA-Seq analysis pipeline for Staphylococcus aureus under antibiotic stress, utilizing Nextflow and Singularity. It involves genome mapping, read counting, and statistical analysis to identify differentially expressed genes (DEGs) and generates key visualizations.