pha4ge / hAMRonizationLinks
Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure
☆172Updated 2 weeks ago
Alternatives and similar repositories for hAMRonization
Users that are interested in hAMRonization are comparing it to the libraries listed below
Sorting:
- snipit: summarise snps relative to your reference sequence☆162Updated 2 months ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆230Updated 2 months ago
- ☆150Updated last year
- BSR-Based Allele Calling Algorithm☆146Updated last week
- A user-friendly workflow for phylogenomics☆222Updated 3 weeks ago
- Pipeline for metabolic annotation of microbial genomes☆150Updated 8 months ago
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆207Updated 3 months ago
- The ARTIC fieldbioinformatics pipeline☆127Updated last month
- Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data☆172Updated this week
- Pan-genome wide association studies☆205Updated last year
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆145Updated 3 months ago
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆267Updated 2 months ago
- Metagenomic classification of long-read sequencing data☆97Updated 3 weeks ago
- Pairwise SNP distance matrix from a FASTA sequence alignment☆146Updated this week
- NanoCLUST is an analysis pipeline for UMAP-based classification of amplicon-based full-length 16S rRNA nanopore reads☆113Updated 2 years ago
- Convert various sequence formats to FASTA☆140Updated last week
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆162Updated 7 months ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆118Updated last year
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆91Updated 2 years ago
- MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.☆184Updated 2 weeks ago
- iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.☆130Updated 2 weeks ago
- Nextflow pipeline to analyze PacBio HiFi full-length 16S data☆88Updated 5 months ago
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆148Updated 2 months ago
- Download files from NCBI Entrez by accession☆131Updated last year
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆159Updated 6 months ago
- Bioinformatics Tools☆89Updated 3 weeks ago
- HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.☆140Updated 2 years ago
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆79Updated 2 years ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆204Updated last month
- "Reads to report" for public health and clinical microbiology☆141Updated this week