Pipeline for identification of eukaryotic contigs in metagenomic assemblies
☆13Mar 14, 2024Updated 2 years ago
Alternatives and similar repositories for EUKsemble
Users that are interested in EUKsemble are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆25Jun 20, 2023Updated 2 years ago
- The viral taxonomic assignment pipeline☆43Updated this week
- Pipeline for Reproducible and Scalable Integration of Metagenomic and Metatranscriptomic Data☆18Feb 17, 2026Updated 2 months ago
- Eukfinder: A pipeline to retrieve microbial eukaryote genomes from metagenomic sequencing data☆29Jan 15, 2026Updated 3 months ago
- Assessing the quality of prokaryotic genomes, filtering and dereplication☆11Aug 26, 2022Updated 3 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Structural and functional annotation of eukaryotic metagenome-assembled genomes☆23May 14, 2023Updated 2 years ago
- MetaSNV, a metagenomic SNV calling pipeline.☆21Mar 25, 2022Updated 4 years ago
- A wrapper to identify, bin, classify, and predict host-viral relationship for viruses☆86Dec 27, 2024Updated last year
- ☆57Apr 8, 2026Updated last week
- A platform for targeted annotation of (meta)genomic and (meta)transcriptomic datasets using HMM sets.☆14Apr 4, 2026Updated 2 weeks ago
- Binning Virus Genomes from Metagenomes☆72Jul 13, 2022Updated 3 years ago
- ☆24Dec 5, 2018Updated 7 years ago
- ☆15Oct 14, 2023Updated 2 years ago
- Identify and remove contaminants from metagenome-assembled genomes☆18Feb 16, 2024Updated 2 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- a command line tool for viral proteomic tree generation, part of the ViPTree project: http://www.genome.jp/viptree☆36Sep 20, 2022Updated 3 years ago
- Classify metagenomic contigs as eukaryotic or prokaryotic☆44Feb 17, 2023Updated 3 years ago
- ☆64Feb 27, 2024Updated 2 years ago
- aweMAGs: a fully automated workflow for eukariotic MAGs☆23Jun 6, 2023Updated 2 years ago
- ☆11Jun 3, 2025Updated 10 months ago
- Nature Communications | BASALT (Binning Across a Series of Assemblies Toolkit) for binning and refinement of short- and long-read sequenc…☆129Feb 8, 2026Updated 2 months ago
- ☆10Mar 29, 2025Updated last year
- Hydrocarbon biodegradation gene annotation☆19Jul 14, 2022Updated 3 years ago
- Assessing and Improving the quality of metagenomic assemblies☆31Feb 21, 2022Updated 4 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…☆65Mar 4, 2026Updated last month
- Bin Chicken - recovery of low abundance and taxonomically targeted metagenome assembled genomes (MAGs) through strategic coassembly☆74Mar 3, 2026Updated last month
- Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs☆17Feb 5, 2022Updated 4 years ago
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t☆12Feb 23, 2025Updated last year
- Tool for unsupervised contig binning from viral metagenomes☆18Oct 22, 2021Updated 4 years ago
- A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during…☆82Sep 8, 2025Updated 7 months ago
- A hybrid assembly and MAG recovery pipeline (and more!)☆106Updated this week
- ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Dat…☆72Mar 16, 2025Updated last year
- Database and pipeline for protein structure-guided annotations of ecologically relevant functions at the metagenome scale.☆24Nov 2, 2025Updated 5 months ago
- Wordpress hosting with auto-scaling - Free Trial • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Find Prokaryotic DNA methylase genes in proteins, contigs, or genomes☆11Jan 23, 2026Updated 2 months ago
- Prediction of microbial interactions in complex communities☆11Aug 14, 2024Updated last year
- Fast tool to build the core genome of prokaryotic genomes. Can handle large datasets. Dependencis: Usearch & Numpy☆10Nov 26, 2025Updated 4 months ago
- A Hierarchical Approach to Pangenomics Inference☆13Apr 15, 2024Updated 2 years ago
- Strain resolved metagenome simulator☆13Aug 11, 2018Updated 7 years ago
- ZGA prokaryotic genome assembly and annotation pipeline☆13Sep 13, 2024Updated last year
- ☆19Jan 14, 2024Updated 2 years ago