TORCH-Consortium / MAGMALinks
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:
- Quality control plotting for long reads☆10Updated last year
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated 11 months ago
- Population analysis PIPEline 🛠🧬☆20Updated last month
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated 2 years ago
- Set of utilities on sequences and BAM files☆27Updated 3 years ago
- Microbial agile accurate SNP Typer☆29Updated last year
- Small and simple scripts useful for various bioinformatics purposes e.g. extract sequences from fasta files☆21Updated 2 years ago
- Hierarchical clustering of cgMLST☆11Updated last year
- A simple nextflow pipeline for running kraken2 and bracken in a docker container☆20Updated 4 years ago
- Genome-Genome circle synteny☆25Updated last year
- ☆14Updated 3 years ago
- Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing☆21Updated 2 years ago
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆24Updated 4 months ago
- Bacterial GWAS analysis☆40Updated last month
- Influenza genome analysis Nextflow workflow☆22Updated 2 months ago
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Updated 2 years ago
- gNOMO2 allows integrated multi-omics analyses of microbiomes☆14Updated 10 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆36Updated 2 months ago
- Bacterial Genomics workflow for short(Illumina) and long-read (Oxford Nanopore) sequencing data☆10Updated 2 weeks ago
- HoCoRT - Remove specific organisms from sequencing reads☆16Updated 5 months ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆37Updated 3 weeks ago
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes☆16Updated 5 years ago
- Influenza genome analysis Nextflow workflow☆26Updated 2 months ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated 11 months ago
- Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)☆33Updated last week
- CFSAN Shigella Typing Pipeline☆14Updated last year
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆23Updated 2 years ago
- Pipeline for metagenome and metatranscriptome joint assembly☆21Updated 2 years ago
- In-depth characterization and annotation of differences between two sets of DNA sequences☆60Updated 5 years ago
- A Nextflow pipeline designed to classify, align and assemble nanopore metagenomic reads.☆14Updated 3 months ago