a pipeline to cluster proteins into families
☆10Apr 1, 2020Updated 6 years ago
Alternatives and similar repositories for proteinClusteringPipeline
Users that are interested in proteinClusteringPipeline are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- detect temperate phage (active prophage) in assembled bacterial genome sequences☆15Feb 10, 2022Updated 4 years ago
- Universal and efficient structure-based core gene phylogeny with Foldseek and ProstT5☆102Mar 12, 2026Updated 7 months ago
- ☆26Feb 7, 2022Updated 4 years ago
- Simple Python interface to CoverM's fast coverage estimation functions☆11Dec 20, 2024Updated last year
- A selection of short scripts for analyzing microbial genomes☆14Jun 26, 2018Updated 8 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.
- Metagenomic search for novel CRISPR-transposons☆12Sep 30, 2021Updated 5 years ago
- ☆47Jun 27, 2023Updated 3 years ago
- ☆13Feb 29, 2024Updated 2 years ago
- Nail is an Alignment Inference tooL☆71Updated this week
- Code for de novo discovery of viral families in virome data☆16Jun 20, 2024Updated 2 years ago
- A machine learning-based tool for predicting metabolic modules in incomplete bacterial genomes.☆23Aug 14, 2025Updated last year
- Estimating maximum growth rates of bacteria from genomic data with Phydon.☆10Sep 18, 2025Updated last year
- Analyzer of Gene and Species Trees☆11Aug 8, 2016Updated 10 years ago
- Prophage Tracer: precisely tracing prophages in prokaryotic genomes using overlapping split-read alignment☆25Oct 16, 2024Updated 2 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- A simple program to classify the lifestyle of phages.☆18May 22, 2023Updated 3 years ago
- Prophage Activity Estimator☆36May 30, 2024Updated 2 years ago
- Rapid & standardized genome annotation using protein structural information☆82Updated this week
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆61Apr 1, 2023Updated 3 years ago
- A tool for computing the coding potential of RNA transcript sequences using deep learning classification model☆58Oct 11, 2022Updated 4 years ago
- Python script to upload bins and MAGs to ENA (European Nucleotide Archive)☆24Updated this week
- This repository contains scripts used in the manuscript "Massive expansion of human gut bacteriophage diversity"☆20Feb 3, 2021Updated 5 years ago
- Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes☆25Sep 27, 2026Updated last month
- CLI tool for finding gene clusters in many genomes and placing them in discrete groups based on gene content similarity.☆19Nov 6, 2024Updated last year
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Fast and sensitive discovery of complete phages and prophages in bacterial genome sequences☆24Dec 16, 2024Updated last year
- SPOT-1D-LM: Reaching Alignment-profile-based Accuracy in Predicting Protein Secondary and Tertiary Structural Properties without Alignmen…☆11Feb 1, 2024Updated 2 years ago
- Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome☆73Mar 16, 2026Updated 7 months ago
- A Hierarchical Approach to Pangenomics Inference☆13Apr 15, 2024Updated 2 years ago
- ViromeQC is a computational tool to benchmark and quantify non-viral contamination in VLP-enrihed viromes. ViromeQC provides an enrichmen…☆21Nov 15, 2022Updated 3 years ago
- HMmer Based UndeRstandinG of gene clustERs☆15Feb 6, 2026Updated 8 months ago
- ViromeScan allows the user to explore and taxonomically characterize the virome from metagenomic reads, efficiently denoising samples fro…☆13Feb 13, 2023Updated 3 years ago
- MacSyFinder - Detection of macromolecular systems in protein datasets using systems modelling and similarity search.☆81Dec 22, 2025Updated 10 months ago
- This repository contains the codebase for the paper "Leveraging ancestral sequence reconstruction for protein representation learning".☆14Jun 24, 2026Updated 4 months 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.
- Protein Annotation by Residue-Specific Enrichment: a site-based statistical method for interpretable protein function annotation☆16Jun 16, 2025Updated last year
- Virus Protein Family tools☆31Jul 20, 2022Updated 4 years ago
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆17Nov 24, 2025Updated 11 months ago
- A reference viral database (RVDB)☆27Nov 30, 2018Updated 7 years ago
- Downstream processing of VAMB binning for Viral Elucidation☆56Jul 3, 2024Updated 2 years ago
- MacSyFinder models allowing for a systematic search of anti-phage systems☆28May 14, 2026Updated 5 months ago
- Pairwise genome comparison pipeline using the LAST software to align a list of query genomes to a target genome, and plot the results☆11Updated this week