Bacterial typing pipeline for clinical NGS data. Written in NextFlow, Python & Bash.
☆13Mar 26, 2026Updated this week
Alternatives and similar repositories for jasen
Users that are interested in jasen are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆19Feb 27, 2026Updated last month
- Bioinformatics with Unix, bash, Make, Python, and parallel☆22Aug 17, 2020Updated 5 years ago
- A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.☆19Updated this week
- This is a deep learning method for identification of viral contigs with short length from metagenomic data.☆10Dec 20, 2021Updated 4 years ago
- Prioritizing Copy Number Variants (CNV) using Phenotype and Gene Functional Similarity☆17Mar 10, 2022Updated 4 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- do some exercise☆14Dec 2, 2025Updated 3 months ago
- Order and orientation of complete bacterial genomes☆29Jul 11, 2025Updated 8 months ago
- A nextflow pipeline for analysing expression and splicing in RNA seq data from rare disease patient☆18Mar 2, 2026Updated 3 weeks ago
- Nanopore read de-multiplexer☆13Mar 25, 2020Updated 6 years ago
- Cool Bioinformatics Scripts☆12May 21, 2024Updated last year
- A streamlined workflow and GUI for real-time species identification and pathogen characterization via nanopore sequencing data. Engineere…☆20Oct 4, 2024Updated last year
- GenomeTools: Scripts and Classes for Working with Genomic Data☆12Jun 7, 2018Updated 7 years ago
- A nextflow pipeline for calling exome CNVs☆13Feb 24, 2026Updated last month
- Rails application for storing and parsing clinical exome VCF files. Gene annotations can be retrieved via Biomart integration from Ensemb…☆10May 7, 2017Updated 8 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- Functional code templates for the Star Protocols paper describing consolidated WES variant calling with 3 callers☆10Oct 18, 2024Updated last year
- A nextflow pipeline with a GMS touch for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbio…☆10Jan 23, 2026Updated 2 months ago
- A nf-core pipeline for untargeted whole genome reconstruction with iSNV detection from metagenomic samples.☆31Mar 13, 2026Updated 2 weeks ago
- A tool to examine duplicate read characteristics in a BAM file☆12Dec 8, 2017Updated 8 years ago
- A method to improve mappings on circular genomes, using the BWA mapper☆10Mar 4, 2022Updated 4 years ago
- Curated list of resources for variant prioritization☆14Nov 18, 2025Updated 4 months ago
- Tutorials for data science and bioinformatics☆13May 3, 2024Updated last year
- A nextflow version of the Wochenende reference metagenome binning and visualization pipeline☆16Mar 4, 2026Updated 3 weeks ago
- MetaPORE – Chiu Laboratory, University of California, San Francisco☆12Nov 4, 2015Updated 10 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- StaG Metagenomic Workflow Collaboration☆28Aug 20, 2024Updated last year
- Python Programming for Biologists☆12Dec 3, 2025Updated 3 months ago
- Real-time species-typing visualisation for nanopore data.☆13Apr 11, 2023Updated 2 years ago
- A nextflow pipeline for calling and annotating small germline variants from short DNA reads for WES and WGS data☆13Mar 23, 2026Updated last week
- Clin.iobio - Workflow and reporting for iobio variant analysis pipeline☆12Oct 7, 2025Updated 5 months ago
- Raspir, the rare species identifier☆11Oct 19, 2023Updated 2 years ago
- Automated ACMG/AMP classification for human variants associated with congenital hearing loss☆11May 14, 2025Updated 10 months ago
- RTG Core: Software for alignment and analysis of next-gen sequencing data.☆49May 27, 2025Updated 10 months ago
- Official code repository for JAX-CNV☆14Jan 16, 2020Updated 6 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Python interface to the GenoLogics LIMS server via its REST API.☆30Aug 13, 2025Updated 7 months ago
- ☆18Nov 7, 2025Updated 4 months ago
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Mar 2, 2023Updated 3 years ago
- NiPTUNE. A Python library for NIPT analyses.☆11Nov 22, 2021Updated 4 years ago
- Pipeline for Illumina shotgun sequencing of 16S rRNA amplicon sequences