Microbial Phenotype Prediction, successor to PICA, implemented with Python 3.7 and scikit-learn
☆13Sep 10, 2021Updated 5 years ago
Alternatives and similar repositories for phenotrex
Users that are interested in phenotrex are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆18Jun 5, 2026Updated 4 months ago
- A repo to reproduce the experiments in the YACHT manuscript☆12Nov 2, 2023Updated 2 years ago
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t☆12Feb 23, 2025Updated last year
- CREST - Classification Resources for Environmnetal Sequence Tags, is a collection of software and databases for taxonomic classification …☆12Mar 20, 2022Updated 4 years ago
- Phasing for metagenomics using PacBio long reads☆16Jul 14, 2021Updated 5 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.
- Fast tool to build the core genome of prokaryotic genomes. Can handle large datasets. Dependencis: Usearch & Numpy☆10Nov 26, 2025Updated 10 months ago
- Pipeline for identification of eukaryotic contigs in metagenomic assemblies☆14Mar 14, 2024Updated 2 years ago
- Protein orthologous group assignment with deep learning☆30Dec 16, 2025Updated 9 months ago
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆17Nov 24, 2025Updated 10 months ago
- Assessing the quality of prokaryotic genomes, filtering and dereplication☆10Aug 26, 2022Updated 4 years ago
- lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters☆41Sep 28, 2025Updated last year
- MICROPHERRET: MICRObial PHEnotypic tRait ClassifieR using machine lEarning Techniques☆15Dec 16, 2025Updated 9 months ago
- ☆14Oct 29, 2024Updated last year
- This repo collects the list of conferences/meetings/workshops etc. related to microbiome science and tools.☆63Oct 2, 2026Updated last week
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- ☆15Oct 14, 2023Updated 2 years ago
- Utility to analyse a group of closely related MAgs/Genomes/bins/SUBs of more or less dubious origin☆15Sep 24, 2024Updated 2 years ago
- Improvement of metagenome-assembled genomes☆59Mar 17, 2020Updated 6 years ago
- Snakemake pipeline calculating KEGG orthologue abundance in metagenomic sequence data.☆26Feb 14, 2026Updated 7 months ago
- Pathway-based and phylogenetically adjusted quantification of competition and cooperation between microbial species☆22Mar 17, 2021Updated 5 years ago
- Protocol for finding informative protein families and then using them to score omic samples☆19Jul 27, 2022Updated 4 years ago
- Utilities for community ecology analysis☆23Oct 2, 2020Updated 6 years ago
- Pipeline for Reproducible and Scalable Integration of Metagenomic and Metatranscriptomic Data☆19Updated this week
- microbiome data simulation package☆22Oct 2, 2025Updated last year
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- De novo metagenome assembler☆15Mar 29, 2023Updated 3 years ago
- A platform for targeted annotation of (meta)genomic and (meta)transcriptomic datasets using HMM sets.☆20Aug 7, 2026Updated 2 months ago
- Recovery of eukaryotic genomes using contrastive learning. A specialized metagenomic binning tool designed for recovering high-quality eu…☆26Updated this week
- Scalable creating/updating of metagenome profiling databases☆62Jun 25, 2025Updated last year
- MetagenOmic read Re-Assigner and abundance quantifier☆22Jun 24, 2026Updated 3 months ago
- Phylogenetic Organization of Metagenomic Signals (POMS)☆18Dec 19, 2022Updated 3 years ago
- Convert your single-cell/spatial analyses to parallel HPC/cloud workflows just using pipes in R☆19Updated this week
- SameStr identifies shared strains between pairs of metagenomic samples based on the similarity of SNV profiles.☆28Nov 19, 2025Updated 10 months ago
- Tool for unsupervised contig binning from viral metagenomes☆18Oct 22, 2021Updated 4 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Hydrocarbon biodegradation gene annotation☆19Jul 14, 2022Updated 4 years ago
- ☆22Dec 9, 2023Updated 2 years ago
- Ensemble binning strategies for combining the output of multiple binning methods.☆22Mar 11, 2023Updated 3 years ago
- A machine learning-based tool for predicting metabolic modules in incomplete bacterial genomes.☆23Aug 14, 2025Updated last year
- Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs☆19Feb 5, 2022Updated 4 years ago
- MetaWIBELE: Workflow to Identify novel Bioactive Elements in microbiome☆22Nov 25, 2025Updated 10 months ago
- This is a read-only mirror of the CRAN R package repository. GOplot — Visualization of Functional Analysis Data. Homepage: https://gith…☆15Mar 30, 2016Updated 10 years ago