A tool to detect acquired AMR genes directly from long read sequencing data.
☆20Jan 31, 2026Updated last month
Alternatives and similar repositories for Amira
Users that are interested in Amira are comparing it to the libraries listed below
Sorting:
- Finding regions of similarity between plasmids☆17Nov 2, 2022Updated 3 years ago
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 2 years ago
- ☆15Feb 10, 2025Updated last year
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons☆21Dec 9, 2025Updated 3 months ago
- Benchmarking different ways of doing read (taxonomic) classification, with a focus on removal of contamination and MTB classification☆14Apr 8, 2024Updated last year
- Ampseer examines reads in fastq format and identifies which multiplex PCR primer set was used to generate the SARS-CoV-2 sequencing libra…☆15Feb 27, 2024Updated 2 years ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆24Feb 6, 2023Updated 3 years ago
- ARGpore2☆13Sep 12, 2024Updated last year
- Genome size estimation from long read overlaps☆81Updated this week
- Host depletion optimised for clinical metagenomic sequencing applications☆16Nov 18, 2024Updated last year
- ☆13Jan 20, 2016Updated 10 years ago
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 2 years ago
- Fast sequence distance estimates☆26Updated this week
- Plasmid analysis using rearrangement distances☆50Feb 19, 2026Updated 2 weeks ago
- Bifrost graph gene caller.☆98Jan 20, 2026Updated last month
- A novel method for sequence similarity estimation☆28Mar 23, 2024Updated last year
- ☆26Updated this week
- Split k-mer analysis – version 2☆104Jan 29, 2026Updated last month
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆62Updated this week
- RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches☆53Updated this week
- A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses☆21Feb 12, 2026Updated 3 weeks ago
- Minimum plain text representation of kmer sets☆16Jan 30, 2025Updated last year
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆104Feb 9, 2026Updated last month
- Gene-flank analysis tool☆37Dec 18, 2024Updated last year
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆41Apr 17, 2024Updated last year
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Apr 26, 2025Updated 10 months ago
- software to identify primers that can distinguish genomes☆20Jan 23, 2026Updated last month
- Targeted Detection and Reconstruction of Plasmids☆22May 7, 2024Updated last year
- rapid serotyping of Vibrio parahaemolyticus from whole genome sequencing data using serogroup-specific genes☆10Sep 2, 2021Updated 4 years ago
- TAXnomic Profile Aggregation and STAndardisation☆42Nov 18, 2025Updated 3 months ago
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆42Sep 3, 2024Updated last year
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆47Apr 1, 2025Updated 11 months ago
- Detect contigs of complete circular genomes☆23Jun 6, 2019Updated 6 years ago
- Extract subsets of ONT (Nanopore) reads based on time☆23Sep 12, 2024Updated last year
- Iterative Gene clUster Analysis, a high-throughput method for gene cluster family identification.☆17Feb 26, 2026Updated last week
- Rapidly extract reads from a FASTQ file based on taxonomic classification via Kraken2.☆13Jan 26, 2026Updated last month
- Bitpacked sequence trait and implementation☆16Feb 27, 2026Updated last week
- ☆10Jun 9, 2025Updated 8 months ago
- ☆10Feb 23, 2024Updated 2 years ago