artic-network / rampartLinks
Read Assignment, Mapping, and Phylogenetic Analysis in Real Time
☆82Updated 9 months ago
Alternatives and similar repositories for rampart
Users that are interested in rampart are comparing it to the libraries listed below
Sorting:
- A scalable bacterial genome assembly, annotation and analysis pipeline☆75Updated 2 years ago
- A tool for Racon polishing of miniasm assemblies☆78Updated 3 months ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆118Updated last year
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆100Updated this week
- A toolbox for pangenome analysis and threshold evaluation.☆101Updated 3 years ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 4 years ago
- Pairwise SNP distance matrix from a FASTA sequence alignment☆145Updated last week
- Interactive visualization of assembly graphs☆83Updated 3 years ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆93Updated this week
- A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads☆68Updated 4 years ago
- 🔗Genome assembly scaffolder using minimizer graphs☆85Updated last year
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆91Updated 2 years ago
- Making whole bacterial genome sequencing data analysis easy☆114Updated 7 months ago
- Chromosome-level scaffolding using multiple references☆164Updated last year
- Microbiome classification pipeline☆65Updated 7 months ago
- tools for assessing the accuracy of genome assemblies☆35Updated last year
- Small collection of tools for performing quality control on coronavirus sequencing data and genomes☆49Updated last year
- Fast k-mer based tool for multi locus sequence typing (MLST)☆45Updated 5 years ago
- A short analysis of Oxford Nanopore consensus accuracy for bacterial genome assemblies☆60Updated 6 years ago
- ☆84Updated 2 years ago
- ☆37Updated 3 years ago
- Split k-mer analysis – version 2☆101Updated 2 months ago
- Primer schemes for real-time genome epidemiology☆30Updated 2 years ago
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆41Updated 4 years ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆60Updated last year
- Split Kmer Analysis☆65Updated 3 years ago
- Adapter trimmer for Oxford Nanopore reads using ab initio method☆54Updated last year
- ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refse…☆103Updated 3 weeks ago
- a collection of scripts for organising bacterial genomes by species☆81Updated 3 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago