A pipeline for comprehensive genomic analyses of Mycobacterium tuberculosis with a focus on clinical decision making as well as research
☆19Jul 15, 2026Updated last week
Alternatives and similar repositories for MAGMA
Users that are interested in MAGMA are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆15Jun 5, 2026Updated last month
- A snakemake workflow for WGS-based tuberculosis transmission analysis☆20Dec 3, 2024Updated last year
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informat…☆19May 3, 2024Updated 2 years ago
- MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumin…☆48Sep 8, 2025Updated 10 months ago
- Profiling NTM WGS data☆18Jun 20, 2026Updated last month
- 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.
- A Python package to update the MLST database for the mlst tool.☆29Updated this week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated last month
- Mycobacterium tuberculosis next generation sequence analysis☆25Oct 11, 2019Updated 6 years ago
- ☆14Jun 30, 2021Updated 5 years ago
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆26Sep 12, 2024Updated last year
- A tooL for Prokaryotic Phylogeny And Clustering Analysis☆14May 22, 2026Updated 2 months ago
- Influenza genome analysis Nextflow workflow☆33Sep 15, 2025Updated 10 months ago
- Extract subsets of ONT (Nanopore) reads based on time☆25Sep 12, 2024Updated last year
- µbinfie blog☆19Jul 21, 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.
- snpless-nf - A Nextflow pipeline for time-course analysis with bacterial NGS whole-genome data.☆14May 12, 2024Updated 2 years ago
- Microbial agile accurate SNP Typer☆30Dec 27, 2023Updated 2 years ago
- Profiling tool for Mycobacterium tuberculosis to detect ressistance and strain type from WGS data☆136Updated this week
- CFSAN Shigella Typing Pipeline☆15Jun 11, 2026Updated last month
- Influenza genome analysis Nextflow workflow☆27Jun 3, 2026Updated last month
- ☆27Aug 2, 2023Updated 2 years ago
- ☆22Jun 1, 2026Updated last month
- A simple pipeline for bacterial assembly and quality control☆16Updated this week
- A pipeline for bioinformatics analysis of bacterial genomes☆34Jul 17, 2026Updated last week
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Jul 2, 2026Updated 3 weeks ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆55Oct 24, 2025Updated 9 months ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆35Jul 2, 2024Updated 2 years ago
- A simple nextflow pipeline for running kraken2 and bracken in a docker container☆21Oct 8, 2025Updated 9 months ago
- MegaPath-Nano: Accurate Compositional Analysis and Drug-level Antimicrobial Resistance Detection Software for Oxford Nanopore Long-read M…☆13Jul 2, 2022Updated 4 years ago
- ☆10Apr 16, 2025Updated last year
- A nextflow version of the Wochenende reference metagenome binning and visualization pipeline☆16Mar 4, 2026Updated 4 months ago
- Rapid identification of Staphylococcus aureus agr locus type and agr operon variants.☆13Jan 6, 2023Updated 3 years ago
- rapid serotyping of Vibrio parahaemolyticus from whole genome sequencing data using serogroup-specific genes☆10Sep 2, 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.
- Interpretative standards for AMR genotypes☆30Updated this week
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆30Jul 18, 2025Updated last year
- Reference-based consensus creation☆61Updated this week
- This is the webpage of the ESGEM-AMR Working Group☆16Updated this week
- Converts bam or cram files to fastq format and does quality control.☆32Jun 17, 2026Updated last month
- A microbial genomic analysis pipeline used by the Djordjevic Lab☆13Feb 9, 2025Updated last year
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆14Jun 30, 2023Updated 3 years ago