raphael-upmc / proteinClusteringPipelineView external linksLinks
a pipeline to cluster proteins into families
☆10Apr 1, 2020Updated 5 years ago
Alternatives and similar repositories for proteinClusteringPipeline
Users that are interested in proteinClusteringPipeline are comparing it to the libraries listed below
Sorting:
- ☆22Feb 7, 2022Updated 4 years ago
- detect temperate phage (active prophage) in assembled bacterial genome sequences☆14Feb 10, 2022Updated 4 years ago
- SPOT-1D-LM: Reaching Alignment-profile-based Accuracy in Predicting Protein Secondary and Tertiary Structural Properties without Alignmen…☆11Feb 1, 2024Updated 2 years ago
- ☆45Jun 27, 2023Updated 2 years ago
- Metagenomic search for novel CRISPR-transposons☆12Sep 30, 2021Updated 4 years ago
- Simple Python interface to CoverM's fast coverage estimation functions☆10Dec 20, 2024Updated last year
- ☆13Feb 29, 2024Updated last year
- A selection of short scripts for analyzing microbial genomes☆14Jun 26, 2018Updated 7 years ago
- A simple program to classify the lifestyle of phages.☆17May 22, 2023Updated 2 years ago
- HMmer Based UndeRstandinG of gene clustERs☆15Feb 6, 2026Updated last week
- ViennaRNA Package consists of a C code library for the prediction and comparison of RNA secondary structures☆15May 20, 2022Updated 3 years ago
- Prophage Tracer: precisely tracing prophages in prokaryotic genomes using overlapping split-read alignment☆24Oct 16, 2024Updated last year
- 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
- ViromeQC is a computational tool to benchmark and quantify non-viral contamination in VLP-enrihed viromes. ViromeQC provides an enrichmen…☆20Nov 15, 2022Updated 3 years ago
- Fast and sensitive discovery of complete phages and prophages in bacterial genome sequences☆22Dec 16, 2024Updated last year
- A machine learning-based tool for predicting metabolic modules in incomplete bacterial genomes.☆23Aug 14, 2025Updated 6 months ago
- Python script to upload bins and MAGs to ENA (European Nucleotide Archive)☆25Feb 6, 2026Updated last week
- ☆20May 7, 2024Updated last year
- MacSyFinder models allowing for a systematic search of anti-phage systems☆24Feb 7, 2025Updated last year
- This repository contains scripts used in the manuscript "Massive expansion of human gut bacteriophage diversity"☆19Feb 3, 2021Updated 5 years ago
- exploring viral genome assembly with variation graph tools☆20May 18, 2020Updated 5 years ago
- ☆25May 9, 2022Updated 3 years ago
- Nail is an Alignment Inference tooL☆55Jan 28, 2026Updated 2 weeks ago
- Locate antiviral defence systems in prokaryotic genomes☆67Oct 22, 2024Updated last year
- A tool for computing the coding potential of RNA transcript sequences using deep learning classification model☆57Oct 11, 2022Updated 3 years ago
- Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome☆67Mar 28, 2025Updated 10 months ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆61Apr 1, 2023Updated 2 years ago
- MIRA sequence assembler☆31Jan 2, 2025Updated last year
- Deep learning for Metagenome Assembly Error Detection☆25Nov 30, 2020Updated 5 years ago
- Mining CRISPRs in Environmental Datasets☆118Feb 10, 2023Updated 3 years ago
- Fast and accurate prediction of coiled coil domains in protein sequences. ☆27Dec 17, 2023Updated 2 years ago
- Comparisons of multiple different prophage predictions☆26Updated this week
- Prophage Activity Estimator☆31May 30, 2024Updated last year
- Open source code for AlphaFold to extract protein embeddings☆27Jul 26, 2021Updated 4 years ago
- ☆11Nov 25, 2023Updated 2 years ago
- ☆29Jun 12, 2024Updated last year
- Phage-Host Interaction Search Tool☆29Jul 8, 2024Updated last year
- showTree can visualize the phylogeny, protein sequences and protein domains of a gene family in one figure.☆31Mar 28, 2019Updated 6 years ago
- Jaeger is a quick and precise tool for detecting phages in sequence assemblies.☆35Jan 22, 2026Updated 3 weeks ago