Portable WDL workflows for IDseq production pipelines
☆32Jan 19, 2022Updated 4 years ago
Alternatives and similar repositories for idseq-workflows
Users that are interested in idseq-workflows are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Infectious Disease Sequencing Platform☆91Feb 10, 2026Updated 8 months ago
- This repository houses the code to run SURPI+, a rapid computational pipeline for comprehensive identification of pathogens from clinical…☆44Nov 20, 2019Updated 6 years ago
- Portable WDL workflows for CZ ID production pipelines☆53Apr 23, 2026Updated 6 months ago
- CZID (formerly IDseq) infectious disease command-line interface☆23Apr 8, 2026Updated 6 months ago
- Taxon Information Query - fast, offline querying of NCBI Taxonomy and related data☆60Feb 8, 2026Updated 8 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- SURPI☆86May 10, 2016Updated 10 years ago
- deduplicate FASTA and FASTQ files☆23Feb 16, 2022Updated 4 years ago
- A scalable bacterial genome assembly, annotation and analysis pipeline☆80Dec 5, 2023Updated 2 years ago
- ☆10Jun 21, 2015Updated 11 years ago
- ☆13Aug 20, 2025Updated last year
- Automatic Input Documentation for WDL workflows☆12Sep 5, 2024Updated 2 years ago
- Web-based User Interface to run WDL bioinformatics workflows using Cromwell server☆13Aug 28, 2024Updated 2 years ago
- Pipelines for eukaryotic pangenome analysis from McCarthy & Fitzpatrick (2019).☆12Jun 7, 2019Updated 7 years ago
- REcombination BARcode detector.☆17Apr 2, 2024Updated 2 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Extends miniwdl to run workflows on AWS Batch & EFS☆22Feb 5, 2024Updated 2 years ago
- ☆14Jan 13, 2017Updated 9 years ago
- ☆16Sep 20, 2019Updated 7 years ago
- Removing PCR duplicates for sequencing reads.☆14Sep 8, 2020Updated 6 years ago
- viral-ngs: complete pipelines☆75Oct 24, 2026Updated last week
- MerCat2: python code for versatile k-mer counting and diversity estimation for database independent property analysis for metaome data☆13Jun 9, 2026Updated 4 months ago
- WDL tools for parsing, type-checking, and more☆28May 2, 2026Updated 6 months ago
- ☆10Nov 15, 2025Updated 11 months ago
- ☆28Aug 2, 2023Updated 3 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Clin-mNGS: Automated pipeline for pathogen detection from clinical metagenomic data☆19Jun 29, 2021Updated 5 years ago
- Sanger sequencing toolkit: chromatogram visualization, mutation calling, QC, base-calling, trimming, assembly and export (CLI + Python + …☆27Oct 24, 2026Updated last week
- Snakemake workflow for metagenomic classification with Kraken2☆66Jun 7, 2023Updated 3 years ago
- kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding☆23Aug 23, 2023Updated 3 years ago
- WDL plugin for pytest☆49Aug 1, 2023Updated 3 years ago
- Nextflow version of SNVPhyl☆12Oct 24, 2024Updated 2 years ago
- ☆10Apr 10, 2016Updated 10 years ago
- Course materials for the Advanced Courses Working With Pathogen Genomes course run virtually in Asia 10-14 May 2021☆11Jul 5, 2024Updated 2 years ago
- Papillomavirus genome annotation tool☆10May 2, 2023Updated 3 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.
- Resources and documentation for UK Biobank to OMOP CDM v5.3.1 conversion☆10Oct 20, 2020Updated 6 years ago
- Bacterial Genomics workflow for short(Illumina) and long-read (Oxford Nanopore) sequencing data☆12Feb 20, 2026Updated 8 months ago
- Faster than s3cp☆37Apr 20, 2022Updated 4 years ago
- Metagenomics/viromics pipeline that focuses on automation, user-friendliness and a clear audit trail. Jovian aims to empower classical bi…☆19Sep 1, 2023Updated 3 years ago
- A Nextflow wrapped workflow for generating the mutation profiles of SARS-CoV-2 or Mpox genomes. Workflow is developed in collaboration wi…☆11Sep 18, 2026Updated last month
- Bluetooth Internet Adapter is an idea for a solution allowing Personal Computers to access Internet content via Bluetooth connection to a…☆15Apr 12, 2010Updated 16 years ago
- Immune deconvolution of publicly available TCGA expression data☆11Jan 28, 2019Updated 7 years ago