A snakemake workflow for benchmarking variant calling approaches with Genome in a Bottle (GIAB), CHM (syndip) or other custom datasets
☆13Jun 8, 2026Updated this week
Alternatives and similar repositories for dna-seq-benchmark
Users that are interested in dna-seq-benchmark are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆13Jun 3, 2026Updated last week
- nf-core/references is a bioinformatics pipeline that build references, for multiple use cases☆20May 4, 2026Updated last month
- Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research☆50May 21, 2026Updated 3 weeks ago
- Functionality for working with pipeline and sample sheet schema files in Nextflow pipelines☆53May 7, 2026Updated last month
- A VSCode extension pack for nf-core developers.☆15Mar 7, 2025Updated last year
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- A nextflow pipeline for calling exome CNVs☆14May 28, 2026Updated 2 weeks ago
- nf-test utility functions☆12May 22, 2026Updated 2 weeks ago
- A nextflow pipeline for calling and annotating small germline variants from short DNA reads for WES and WGS data☆13Jun 4, 2026Updated last week
- VEP-like tool for sequence ontology and HGVS annotation of VCF files☆31Updated this week
- Phasing reads with secondary alignments☆22Nov 30, 2024Updated last year
- This repository hosts a large collection of Nextflow snippets☆56Jan 26, 2025Updated last year
- A bioinformatics best-practice analysis pipeline for calling structural variants (SVs), copy number variants (CNVs) and repeat region exp…☆27Apr 17, 2026Updated last month
- ☆12Apr 18, 2022Updated 4 years ago
- Dedicated QC-only pipeline for sequencing data. The pipeline will run a (potentially large) set of QC tools and can output global and gro…☆25Jun 3, 2026Updated last week
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Python OncoPrint library based on Matplotlib☆27Sep 23, 2025Updated 8 months ago
- 16S pipeline using qiime2 created with snakemake☆12Jun 2, 2026Updated last week
- A short tandem repeat (STR) genotyping and analysis toolkit for long reads☆19May 26, 2026Updated 2 weeks ago
- A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Remo…☆24Apr 30, 2026Updated last month
- Testing building mulled containers for multi-requirement tools.☆84Updated this week
- TIDDIT - structural variant calling☆10Dec 8, 2025Updated 6 months ago
- A webtool for the clinical interpretation of CNVs in rare disease patients☆13Jun 10, 2022Updated 4 years ago
- GPRuler, an open-source computational framework to automate the reconstruction process of Gene-Protein-Reaction (GPR) rules within metabo…☆13Oct 11, 2022Updated 3 years ago
- A cookiecutter template for Snakemake workflows☆60Feb 2, 2022Updated 4 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- nRex: Germline and somatic single-nucleotide, short indel and structural variant calling☆12Sep 19, 2025Updated 8 months ago
- This software implements a high-throughput data processing pipeline to identify and charaterize SARS-CoV-2 variant sequences in specimens…☆11Aug 1, 2023Updated 2 years ago
- Converts bam or cram files to fastq format and does quality control.☆31May 13, 2026Updated 3 weeks ago
- A Rust library for storing generic genomic data by sorted chromosome name☆17Sep 26, 2024Updated last year
- an API for intersections of genomic data☆149Mar 12, 2026Updated 2 months ago
- Short Tandem Repeat disease loci resource☆29Updated this week
- An ensemble approach to accurately detect somatic mutations using SomaticSeq☆205Apr 25, 2026Updated last month
- Nextflow pipeline to convert VCF files into MAF files.☆10Dec 12, 2025Updated 5 months ago
- These scripts reformat a VCF into a SQLite database, with R☆15Jul 15, 2021Updated 4 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- A cookiecutter template that reflects my favored structure for setting up Snakemake-based analysis pipelines.☆16Jul 25, 2016Updated 9 years ago
- Genome scale metabolic models in SBML format☆11Nov 16, 2021Updated 4 years ago
- A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.☆34Jun 3, 2025Updated last year
- ☆78Mar 6, 2014Updated 12 years ago
- ATaRVa - Analysis of Tandem Repeat Variation☆21May 22, 2026Updated 2 weeks ago
- (WIP) best-practices workflow for rare disease☆64Jul 1, 2024Updated last year
- ☆25Jun 6, 2025Updated last year