arpcard / amr_curationLinks
A public repository for collective curation of antimicrobial resistance (AMR) genes and mutations. Submit, discuss, and resolve AMR curation issues.
☆59Updated 7 months ago
Alternatives and similar repositories for amr_curation
Users that are interested in amr_curation are comparing it to the libraries listed below
Sorting:
- A toolbox for pangenome analysis and threshold evaluation.☆100Updated 3 years ago
- a collection of scripts for organising bacterial genomes by species☆77Updated 3 years ago
- IS mapping software☆56Updated 3 years ago
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆77Updated 2 years ago
- From genomes to phenotypes: Traitar, the microbial trait analyzer☆59Updated 5 years ago
- scripts for estimating bacteria replication rates based on population genome copy number variation☆72Updated 5 years ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆100Updated last week
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆115Updated last year
- Making whole bacterial genome sequencing data analysis easy☆109Updated 3 months ago
- DDBJ Fast Annotation and Submission Tool☆81Updated 3 months ago
- Convert GTDB taxonomy to NCBI taxdump format☆74Updated last year
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆73Updated last year
- Prediction of prophages from bacterial genomes☆79Updated last month
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆126Updated last year
- ☆83Updated last year
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆91Updated last year
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆70Updated 4 years ago
- Phylogenetic and taxonomic analysis for genomes and metagenomes☆82Updated 9 years ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆55Updated last year
- Bacterial Isolate Genome Sequence Database (BIGSdb): A platform for gene-by-gene bacterial population annotation and analysis.☆70Updated 2 weeks ago
- Collection of scripts for bacterial genomics☆47Updated 5 years ago
- NanoCLUST is an analysis pipeline for UMAP-based classification of amplicon-based full-length 16S rRNA nanopore reads☆111Updated last year
- GraftM - Rapid community profiles from metagenomes☆46Updated last year
- A toolbox for comparative genomics.☆104Updated 4 years ago
- A pipeline for running AMRfinderPlus and collating results into functional classes☆79Updated 11 months ago
- Pairwise SNP distance matrix from a FASTA sequence alignment☆137Updated last year
- Long-read metagenomic analysis☆103Updated last year
- A scalable bacterial genome assembly, annotation and analysis pipeline☆74Updated last year
- Fast k-mer based tool for multi locus sequence typing (MLST)☆46Updated 4 years ago
- SKESA assembler☆121Updated 9 months ago