This repo is archived, the these workflows are still available in the GATK repository under the scripts directory. The workflows are also organized in Dockstore in the GATK Best Practices Workflows collection.
☆11Mar 9, 2020Updated 6 years ago
Alternatives and similar repositories for gatk4-pathseq
Users that are interested in gatk4-pathseq are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- We present a customizable computational tool, PathSeq2.0, to enable the discovery and identification of microbial sequences in metagenomi…☆12Jan 20, 2018Updated 8 years ago
- Microbiome Projects from the Department of Genetics and Department of Gastroenterology and Hepatology , University Medical Centre Groning…☆60Jun 4, 2025Updated last year
- Viral Identification and Discovery - A viral characterization pipeline built in Nextflow.☆11May 19, 2020Updated 6 years ago
- TRUST4 manuscript evaluation☆17Jul 8, 2022Updated 4 years ago
- Gap2Seq is a gap filling and insertion genotyping tool.☆22Aug 12, 2024Updated last year
- 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.
- R package of CSOmap(developing☆13Mar 22, 2022Updated 4 years ago
- Microbial analysis in TCGA data☆94Feb 23, 2024Updated 2 years ago
- A toolset for analysis and visualisation of Spatial Transcriptomics datasets.☆18Jun 11, 2021Updated 5 years ago
- Method for de novo mutation calling from droplet based single cell RNA seq data☆14Oct 6, 2021Updated 4 years ago
- A computational workflow for exitron splicing identification☆16Jul 17, 2026Updated last week
- ☆23May 28, 2026Updated last month
- Bulk-Sequence Single-Cell Gene Expression Deconvolution Pipeline☆48Jun 12, 2023Updated 3 years ago
- ** Blood metabolome predicts gut microbiome α-diversity in humans**☆24Sep 23, 2019Updated 6 years ago
- shifts hg19/38 genomic position for feasible input format.☆12Jun 8, 2023Updated 3 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.
- ☆63Jul 16, 2026Updated last week
- Filters for Next Generation Sequencing☆13Oct 31, 2024Updated last year
- Short Time-series Expression Miner (STEM) and Dynamic Regulatory Events Miner (DREM)☆21Jun 16, 2026Updated last month
- Instructions and analysis scripts for single cell Higher Order Testing (scHOT)☆10Oct 7, 2020Updated 5 years ago
- mutation(barcode) caller for 10x single cell data☆44Jun 14, 2020Updated 6 years ago
- Haplotype-based somatic genome simulator☆10Apr 20, 2026Updated 3 months ago
- Calculate the dn/ds (also pn and ps) value of cds☆14Jul 11, 2020Updated 6 years ago
- Alignment and variant-calling pipeline for Illumina HIV sequences.☆11May 19, 2020Updated 6 years ago
- ☆12Dec 14, 2021Updated 4 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Profiler for metagenomics based on NGLess☆14Feb 22, 2024Updated 2 years ago
- the Metagenomic test for Presence Or Absence of Pathways☆13Mar 4, 2019Updated 7 years ago
- Combined clonality and transcriptome scRNAseq clustering method☆11Dec 3, 2022Updated 3 years ago
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆39Jan 13, 2026Updated 6 months ago
- SANEFALCON (Single reAds Nucleosome-basEd FetAL fraCtiON): Calculating the fetal fraction for noninvasive prenatal testing based on genom…☆14Jun 5, 2020Updated 6 years ago
- Supporting information of 'Single-cell RNA sequencing of a European and an African lymphoblastoid cell line'☆11Feb 27, 2020Updated 6 years ago
- Deep neural network based prediction model for gene essentiality prediction in microbes☆10Feb 11, 2021Updated 5 years ago
- ☆14Jun 23, 2026Updated last month
- Full-spectrum copy number variation detection by high-throughput DNA sequencing☆43Aug 17, 2021Updated 4 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- Easily submitting multiple PBS jobs or running local jobs in parallel. Multiple input files supported.☆29May 24, 2023Updated 3 years ago
- ☆13Apr 30, 2019Updated 7 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
- ☆15Apr 20, 2023Updated 3 years ago
- The SpeciesPrimer pipeline is intended to help researchers finding specific primer pairs for the detection and quantification of bacteria…☆48Apr 24, 2024Updated 2 years ago
- QuasiModo: Assessing viral genomic analysis methods on HCMV strain mixture☆12Sep 22, 2022Updated 3 years ago
- ☆12Nov 23, 2020Updated 5 years ago