TORCH-Consortium / MAGMALinks
A pipeline for comprehensive genomic analyses of Mycobacterium tuberculosis with a focus on clinical decision making as well as research
☆18Updated 3 weeks ago
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
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆40Updated last year
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated last year
- Influenza genome analysis Nextflow workflow☆28Updated last month
- A pipeline for high-quality bacterial genome construction using ONT sequencing☆39Updated 2 years ago
- gNOMO2 allows integrated multi-omics analyses of microbiomes☆15Updated last year
- Ancient microbiome snakemake workflow☆26Updated 4 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- screening metagenomes for arbitrary lineages, using gene-centric assembly methods and phylogenetics☆11Updated 4 years ago
- ☆14Updated 4 years ago
- Small and simple scripts useful for various bioinformatics purposes e.g. extract sequences from fasta files☆21Updated 2 years ago
- A simple nextflow pipeline for running kraken2 and bracken in a docker container☆20Updated 4 years ago
- Bacterial Genomics workflow for short(Illumina) and long-read (Oxford Nanopore) sequencing data☆12Updated 2 months ago
- Microbial agile accurate SNP Typer☆30Updated last year
- a broadly applicable tool for automated gene identification and retrieval☆32Updated 8 months ago
- VStrains is a de novo approach for reconstructing strains from viral quasispecies.☆23Updated 6 months ago
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes☆16Updated 5 years ago
- ☆26Updated 2 years ago
- Perl and Python scripts allowing to get sequence information from GenBank, RefSeq or ENA sequence repositories☆14Updated 5 months ago
- DETONATE: DE novo TranscriptOme rNa-seq Assembly with or without the Truth Evaluation☆13Updated 9 years ago
- convert a blast output to a bed file☆12Updated 10 years ago
- Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing☆21Updated 2 years ago
- Given a reference, PhaME extracts SNPs from complete genomes, draft genomes and/or reads. Uses SNP multiple sequence alignment to constr…☆33Updated last year
- Genome-Genome circle synteny☆25Updated last year
- Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.☆27Updated 2 weeks ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- A simple-to-use tool for visualizing and comparing genome contexts for numerous genomes☆17Updated last year
- Hierarchical clustering of cgMLST☆11Updated last year
- Consensus genome annotation using OMA☆26Updated 2 months ago
- ☆26Updated 4 years ago