Variant Calling Pipeline Using GATK4 and Nextflow
☆59Jul 8, 2026Updated last month
Alternatives and similar repositories for variant-calling-pipeline-gatk4
Users that are interested in variant-calling-pipeline-gatk4 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- GATK RNA-Seq Variant Calling in Nextflow☆137Dec 14, 2022Updated 3 years ago
- Advanced steps of the OSCA book☆16Jul 28, 2026Updated 3 weeks ago
- Assembly and intrahost / low-frequency variant calling for viral samples☆15Feb 12, 2020Updated 6 years ago
- Alignment and variant-calling pipeline for Illumina HIV sequences.☆11May 19, 2020Updated 6 years ago
- Synteny Mapping and Analysis Program☆30Jul 22, 2026Updated 3 weeks ago
- 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.
- ☆15Aug 1, 2021Updated 5 years ago
- dv-trio provides a pipeline to call variants for a trio (father-mother-child) using DeepVariants [1]. Genomic Variant Calling Files (gVCF…☆11Feb 3, 2021Updated 5 years ago
- TIDDIT - structural variant calling☆80Jul 20, 2026Updated 3 weeks ago
- Snakemake workflow for neoantigen prediction☆15Sep 7, 2023Updated 2 years ago
- convert a blast output to a bed file☆12Jun 19, 2015Updated 11 years ago
- This repository contains Jupyter Notebooks containing GATK Best Practices Workflows☆26Dec 19, 2019Updated 6 years ago
- Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.☆11Aug 11, 2026Updated last week
- Workflows for germline short variant discovery with GATK4☆144May 7, 2021Updated 5 years ago
- ☆11Aug 20, 2019Updated 6 years ago
- 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.
- Locate transgenic insertion sites☆11Mar 14, 2023Updated 3 years ago
- Circular RNA Identification for Nanopore Sequencing☆23May 23, 2024Updated 2 years ago
- Set of scripts to manupulate tab-delimited genotype calls files as well as to convert calls-files to other popular formats.☆10Jan 11, 2021Updated 5 years ago
- Westlake BioBank for Chinese pilot project☆10May 17, 2023Updated 3 years ago
- Whole genome workflows☆13Nov 9, 2024Updated last year
- Small utility script to submit genomes to PHASTER for phage detection☆26Oct 21, 2021Updated 4 years ago
- The code used in the manuscript titled "Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants".☆29Mar 19, 2021Updated 5 years ago
- RNA dependent RNA Polymerase Palmprint Analysis☆13Aug 1, 2024Updated 2 years ago
- Front-end code for Serratus project website☆11Jul 2, 2024Updated 2 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Package to design primers for MutaSeq and related methods☆11Jan 15, 2021Updated 5 years ago
- R package to estimate kinship and FST from SNP data☆21Jan 27, 2026Updated 6 months ago
- GAPPadder is tool for closing gaps on draft genomes with short sequencing data☆29Jun 1, 2017Updated 9 years ago
- Workflows used for processing whole genome sequence data + germline variant calling. This Repository has been archived, please visit the …☆28Jan 4, 2021Updated 5 years ago
- DNAscan2 is a fast and efficient bioinformatics pipeline that allows for the analysis of DNA Next Generation sequencing data, requiring v…☆14May 7, 2024Updated 2 years ago
- A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads, with lots of bells and whistles - fo…☆119Jun 24, 2025Updated last year
- UVC, a very accurate small-variant caller (https://doi.org/10.1093/bib/bbab458)☆14May 18, 2025Updated last year
- A web application for interactive visualization and exploratory data analysis of variant call matrices☆23Jul 17, 2023Updated 3 years ago
- A pipeline to identify gene family using mutiple tools and scripts.☆12Aug 22, 2021Updated 4 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- ☆15Apr 20, 2023Updated 3 years ago
- Automatised pipeline of ConsensuSV workflow.☆24Aug 23, 2023Updated 2 years ago
- Few scripts facilitating the extraction of info from Repeat Masker .out files☆88May 25, 2021Updated 5 years ago
- blastn2dotplots: multiple dot-plot visualizer☆29Sep 15, 2025Updated 11 months ago
- ☆28Feb 19, 2025Updated last year
- Hclust2 is a handy tool for plotting heat-maps with several useful options to produce high quality figures that can be used in publicatio…☆13Jan 14, 2023Updated 3 years ago
- GATK4 Best Practice Nextflow Pipeline☆35Jan 18, 2018Updated 8 years ago