Bacterial typing pipeline for clinical NGS data. Written in NextFlow, Python & Bash.
☆15Jul 6, 2026Updated 3 weeks ago
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:
- Taxonomic Reconstruction and Analysis of NGS Amplicons - A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads…☆22Jun 16, 2026Updated last month
- ☆19Apr 24, 2026Updated 3 months ago
- Bioinformatics with Unix, bash, Make, Python, and parallel☆22Aug 17, 2020Updated 5 years ago
- This is a deep learning method for identification of viral contigs with short length from metagenomic data.☆10Dec 20, 2021Updated 4 years ago
- do some exercise☆15Dec 2, 2025Updated 7 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Order and orientation of complete bacterial genomes☆29Jun 30, 2026Updated last month
- A nextflow pipeline for analysing expression and splicing in RNA seq data from rare disease patient☆18Updated this week
- Prioritizing Copy Number Variants (CNV) using Phenotype and Gene Functional Similarity☆18Mar 10, 2022Updated 4 years ago
- Nanopore read de-multiplexer☆13Mar 25, 2020Updated 6 years ago
- Tutorials for data science and bioinformatics☆13May 3, 2024Updated 2 years ago
- A streamlined workflow and GUI for real-time species identification and pathogen characterization via nanopore sequencing data. Engineere…☆20Updated this week
- Cool Bioinformatics Scripts☆12May 21, 2024Updated 2 years ago
- Rails application for storing and parsing clinical exome VCF files. Gene annotations can be retrieved via Biomart integration from Ensemb…☆10May 7, 2017Updated 9 years ago
- A pipeline for the identification of Compound Heterozygous Variants☆10Nov 10, 2022Updated 3 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.
- GenomeTools: Scripts and Classes for Working with Genomic Data☆12Jun 7, 2018Updated 8 years ago
- 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 6 months 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☆11Mar 4, 2022Updated 4 years ago
- Curated list of resources for variant prioritization☆15Nov 18, 2025Updated 8 months ago
- StaG Metagenomic Workflow Collaboration☆28Aug 20, 2024Updated last year
- A nextflow pipeline for calling and annotating small germline variants from short DNA reads for WES and WGS data☆13Jul 22, 2026Updated last week
- Clin.iobio - Workflow and reporting for iobio variant analysis pipeline☆12Oct 7, 2025Updated 9 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Python interface to the GenoLogics LIMS server via its REST API.☆30Aug 13, 2025Updated 11 months ago
- Python Programming for Biologists☆13Dec 3, 2025Updated 7 months ago
- MetaPORE – Chiu Laboratory, University of California, San Francisco☆12Nov 4, 2015Updated 10 years ago
- Automated ACMG/AMP classification for human variants associated with congenital hearing loss☆11May 14, 2025Updated last year
- Raspir, the rare species identifier☆11Oct 19, 2023Updated 2 years ago
- Real-time species-typing visualisation for nanopore data.☆12Apr 11, 2023Updated 3 years ago
- A nextflow pipeline for calling exome CNVs☆14Jul 22, 2026Updated last week
- Official code repository for JAX-CNV☆14Jan 16, 2020Updated 6 years ago
- RTG Core: Software for alignment and analysis of next-gen sequencing data.☆50May 27, 2025Updated last year
- 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.
- NiPTUNE. A Python library for NIPT analyses.☆11Nov 22, 2021Updated 4 years ago
- GitHub repository for GenErode, a Snakemake workflow for the analysis of whole-genome sequencing data from historical and modern samples …☆32May 18, 2026Updated 2 months ago
- ☆19Nov 7, 2025Updated 8 months ago
- ☆27Mar 2, 2026Updated 4 months ago
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Mar 2, 2023Updated 3 years ago
- Pipeline in place at the UGI for DNA level analysis☆11Aug 29, 2016Updated 9 years ago
- This is the official development repository for BaseVar, which call variants for large-scale ultra low-pass (<1.0x) WGS data, especially …☆28May 28, 2026Updated 2 months ago