A tool to detect acquired AMR genes directly from long read sequencing data.
☆28Jan 31, 2026Updated 3 months ago
Alternatives and similar repositories for Amira
Users that are interested in Amira are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Finding regions of similarity between plasmids☆17Nov 2, 2022Updated 3 years ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆26Feb 6, 2023Updated 3 years ago
- Genome size estimation from long read overlaps☆86May 1, 2026Updated last week
- ☆31Updated this week
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons☆21Dec 9, 2025Updated 5 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 2 years ago
- Plasmid analysis using rearrangement distances☆53Apr 30, 2026Updated last week
- Host depletion optimised for clinical metagenomic sequencing applications☆17Updated this week
- ☆15Feb 10, 2025Updated last year
- ARGpore2☆13Sep 12, 2024Updated last year
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 2 years ago
- 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
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆41Apr 17, 2024Updated 2 years ago
- Split k-mer analysis – version 2☆104Apr 9, 2026Updated last month
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Benchmarking different ways of doing read (taxonomic) classification, with a focus on removal of contamination and MTB classification☆14Apr 8, 2024Updated 2 years ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆70Apr 28, 2026Updated last week
- Gene-flank analysis tool☆37Dec 18, 2024Updated last year
- A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses☆21Feb 12, 2026Updated 2 months ago
- Bifrost graph gene caller.☆98Apr 12, 2026Updated 3 weeks ago
- ☆14Jan 20, 2016Updated 10 years ago
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Feb 27, 2026Updated 2 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Apr 30, 2026Updated last week
- A novel method for sequence similarity estimation☆28Mar 23, 2024Updated 2 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- Targeted Detection and Reconstruction of Plasmids☆22May 7, 2024Updated 2 years ago
- RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches☆54Apr 23, 2026Updated 2 weeks ago
- TAXnomic Profile Aggregation and STAndardisation☆43May 2, 2026Updated last week
- software to identify primers that can distinguish genomes☆20Jan 23, 2026Updated 3 months ago
- ☆12Apr 5, 2022Updated 4 years ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆108Mar 2, 2026Updated 2 months ago
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆13Mar 12, 2024Updated 2 years ago
- Rapid discovery of reciprocal best blast pairs.☆10Nov 9, 2024Updated last year
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Minimum plain text representation of kmer sets☆18Jan 30, 2025Updated last year
- AMR/VF LGT focused bacterial genomics analysis workflow☆28Feb 19, 2026Updated 2 months ago
- Fast sequence distance estimates☆28Apr 27, 2026Updated last week
- ☆10Jun 9, 2025Updated 11 months ago
- Extract subsets of ONT (Nanopore) reads based on time☆24Sep 12, 2024Updated last year
- Basecalling configuration prediction through FASTQ files☆33Mar 17, 2026Updated last month
- Rapidly extract reads from a FASTQ file based on taxonomic classification via Kraken2.☆13Jan 26, 2026Updated 3 months ago