Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research
☆40Mar 19, 2026Updated this week
Alternatives and similar repositories for variantbenchmarking
Users that are interested in variantbenchmarking are comparing it to the libraries listed below
Sorting:
- A snakemake workflow for benchmarking variant calling approaches with Genome in a Bottle (GIAB), CHM (syndip) or other custom datasets☆13Mar 12, 2026Updated last week
- ☆13Feb 11, 2026Updated last month
- Functionality for working with pipeline and sample sheet schema files in Nextflow pipelines☆52Feb 5, 2026Updated last month
- A nextflow pipeline for calling exome CNVs☆13Feb 24, 2026Updated 3 weeks ago
- nf-core/references is a bioinformatics pipeline that build references, for multiple use cases☆19Jan 15, 2026Updated 2 months ago
- A nextflow pipeline which integrates multiple omic data streams and performs coordinated analysis☆11May 9, 2024Updated last year
- Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq☆91Updated this week
- Dedicated QC-only pipeline for sequencing data. The pipeline will run a (potentially large) set of QC tools and can output global and gro…☆24Updated this week
- An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.☆56Updated this week
- A VSCode extension pack for nf-core developers.☆15Mar 7, 2025Updated last year
- An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.☆31Feb 28, 2026Updated 3 weeks ago
- This repository hosts a large collection of Nextflow snippets☆56Jan 26, 2025Updated last year
- Test data for MultiQC.☆24Mar 3, 2026Updated 2 weeks ago
- Nextflow Tower CLI tool☆53Updated this week
- A comprehensive cancer DNA/RNA analysis and reporting pipeline☆105Updated this week
- A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Remo…☆24Nov 20, 2025Updated 4 months ago
- A short tandem repeat (STR) genotyping and analysis toolkit for long reads☆18Updated this week
- Compare the quality of multiple genomes, along with their annotations.☆20Updated this week
- ☆32Jun 20, 2025Updated 9 months ago
- List of IARC bioinformatics pipelines and resources☆56Updated this week
- vcfdist: Accurately benchmarking phased variant calls☆84Feb 23, 2026Updated last month
- A Rust library for storing generic genomic data by sorted chromosome name☆17Sep 26, 2024Updated last year
- A bioinformatics best-practice analysis pipeline for calling structural variants (SVs), copy number variants (CNVs) and repeat region exp…☆27Updated this week
- Phasing reads with secondary alignments☆22Nov 30, 2024Updated last year
- ☆27Nov 14, 2025Updated 4 months ago
- Nextflow DSL2 pipeline to align short and long reads to genome assembly. This workflow is part of the Tree of Life production suite.☆15Updated this week
- A Nextflow pipeline to play Doom☆10Dec 1, 2025Updated 3 months ago
- expressions on VCFs☆91Updated this week
- Giraffe_View is designed to help assess and visualize the accuracy of long-read sequencing datasets.☆13Sep 3, 2024Updated last year
- Open-Source Software for Omic Data Analysis and Visualization☆40Feb 25, 2026Updated 3 weeks ago
- De novo tandem repeat calling from PacBio HiFi data☆19Dec 5, 2025Updated 3 months ago
- python plotly Circos from VCF☆40Jun 20, 2024Updated last year
- A pipeline to run and systematically evaluate Multiple Sequence Alignment (MSA) methods.☆40Nov 20, 2025Updated 4 months ago
- A nextflow pipeline for calling and annotating small germline variants from short DNA reads for WES and WGS data☆13Updated this week
- A GitHub action to install Nextflow☆28Updated this week
- Generate random test data for bioinformatics☆27Jun 17, 2024Updated last year
- A segmentation approach to analyze DNA methylation patterns and identify differentially methylation regions from whole-genome datasets☆19Feb 16, 2026Updated last month
- A graph visualisation tool targeted at persistent homology applications.☆11Jul 28, 2020Updated 5 years ago
- ☆29Oct 16, 2024Updated last year