TORCH-Consortium / MAGMA
A pipeline for comprehensive genomic analyses of Mycobacterium tuberculosis with a focus on clinical decision making as well as research
☆16Updated this week
Alternatives and similar repositories for MAGMA
Users that are interested in MAGMA are comparing it to the libraries listed below
Sorting:
- A simple nextflow pipeline for running kraken2 and bracken in a docker container☆20Updated 4 years ago
- Microbial agile accurate SNP Typer☆29Updated last year
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated 10 months ago
- Hierarchical clustering of cgMLST☆11Updated last year
- Small and simple scripts useful for various bioinformatics purposes e.g. extract sequences from fasta files☆20Updated 2 years ago
- Influenza genome analysis Nextflow workflow☆22Updated last month
- Genome-Genome circle synteny☆25Updated last year
- Influenza genome analysis Nextflow workflow☆26Updated last month
- Visualisation application for Klebsiella genotypes generated by Kleborate.☆9Updated 4 years ago
- Population analysis PIPEline 🛠🧬☆18Updated 2 weeks ago
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Updated 2 years ago
- k-mer based Pipeline to identify the Serotype from Illumina NGS reads☆23Updated last year
- Quality control plotting for long reads☆10Updated last year
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated 10 months ago
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informat…☆19Updated last year
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆24Updated 3 months ago
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆24Updated last year
- Primer design from single genes to whole gene families for unlocking the tree of life☆14Updated last month
- Bacterial GWAS analysis☆40Updated 3 weeks ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- ☆14Updated 3 years ago
- A script for comparing old vs new versions of genome annotations☆20Updated last year
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆34Updated 5 months ago
- a broadly applicable tool for automated gene identification and retrieval☆31Updated 5 months ago
- CFSAN Shigella Typing Pipeline☆14Updated last year
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 3 weeks ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆24Updated 9 months ago
- A containerized bioinformatics pipeline for viral metagenomic data analysis☆31Updated 9 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆41Updated 4 years ago
- snpless-nf - A Nextflow pipeline for time-course analysis with bacterial NGS whole-genome data.☆14Updated last year