Multi-sample somatic variant caller

RNAseq pipeline for alternative splicing junctions

Fast, epiallele-aware methylation caller and reporter — an R/Bioconductor package

summarising outputs of samtools stats with ATAC-seq qc in mind

Obtaining case-associated variants and correspondent genes (from control/case experiments) in BASH/R enviroment

Sequencing data preprocessing

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.

A streamlined pipeline for germline variant calling on chromosome 11 using GATK. This repository includes workflows for data preprocessing, variant discovery, and annotation, with a focus on understanding genetic variations linked to disease-associated genes.