A structural variation pipeline for short-read sequencing

Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data

Pipeline for structural variation detection in cohorts

Benchmark pipeline for Structural Variation analyses, funded by the ALLBio.

Whole Genome Sequenceing Structural Variation Pipelines

HiSV: a computational pipeline for structural variation detection from Hi-C data

Comprehensive and deep evaluation of structural variation detection pipelines with third-generation sequencing data

A small pipeline to annotate and filter candidate structural variation calls

Structural variation analysis pipeline for cancer genomes

Pipeline for structural variation detection from liWGS libraries

seabreeze: A Pipeline for Analyzing Structural Variation Between Bacterial Genome Assemblies

COMSV (Cancer Optical Mapping based Structural Variation detection) is a pipeline for SV detection based on nanochannel optical mapping data.

A tutorial demonstrating a best practise approach to structural variation discovery using pipeline-structural-variation

WGS Structural Variation Pipeline

the analysis pipeline for structural variation (SV) detection

Pipeline of structural-variation calling for Retinoblastoma samples

Nextflow pipeline to simulate structural variations in long reads sequencing data

A bioinformatic pipeline for identifying structural variation in repetitive DNA using NGS data.

Pipeline in construction: Genomic landscape of transposable elements and structural variation using long reads whole genome sequencing

Pipeline Builder is a Dockerized web tool for creating, editing, and generating Jenkins CI/CD pipeline definitions (Groovy + JJB YML files). It is designed for Percona’s release build system, where ~50 pipelines follow the same structural template with product-specific variations.

structural variation pipeline

Structural Variation Pipelines

Snakemake pipeline for investigating structural variation and methylation using long-reads

A nextflow pipeline for Diploid Assembly and Structural Variation calling with Annotation.

WIP pipeline for the Structural Variation and Copy Number Working Group of ICGC-ARGO

An Integrated Multi-Caller Pipeline for High-Confidence Multi-Sample Structural Variation Discovery Using Pacbio Hifi Data

# SV Pipeline This repository contains a Bash pipeline (`sv_pipeline.sh`) for **structural variation (SV) detection** using multiple callers and a final merging step. It is designed to run on HPC systems with **Lmod module environment**.

Based on previous software and advanced analysis process of microbial SV, we synthesized and implemented a pipeline called MicroSVsProfiler (Microbiota Structure Variants Profiler), which can perform preprocessing of metagenomic data, detect structural variations.

Showcase of my MSc Bioinformatics projects: NGS data analysis, variant calling, structural variant pipelines, nutrigenomics, and population genomics (focus on Indian/South Asian genetic variation). Built with Python, pandas, matplotlib/seaborn/plotly. Open to opportunities in computational biology, genomics, and precision nutrition.

Automated Python pipeline for the ONS ASHE 2025 dataset. This project handles complex multi-sheet Excel metadata and structural transformations to ensure data integrity. This project also implements statistical robustness checks via Coefficient of Variation (CV) filtering for reliable econometric inference and analysis of wage dispersion.