DeepMicrobes: taxonomic classification for metagenomics with deep learning
☆106Sep 17, 2022Updated 3 years ago
Alternatives and similar repositories for DeepMicrobes
Users that are interested in DeepMicrobes are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Minimal Microbial Consortia creation tools☆13Jan 28, 2022Updated 4 years ago
- kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding☆23Aug 23, 2023Updated 2 years ago
- deSAMBA: fast and accurate classification of metagenomics long reads with sparse approximate matches☆12May 5, 2024Updated 2 years ago
- Microbiome classification pipeline☆67May 13, 2025Updated last year
- Highly sensitive pathogen detection☆12Oct 5, 2020Updated 5 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- CAMISIM: Simulating metagenomes and microbial communities☆225May 27, 2026Updated 2 weeks ago
- Identifying viruses from metagenomic data by deep learning☆153May 5, 2026Updated last month
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- MicroPheno Project☆12Oct 21, 2022Updated 3 years ago
- Long-read metagenomic analysis☆111Oct 10, 2023Updated 2 years ago
- Toolkit for establishing, updating, and validating GTDB species clusters☆20Mar 23, 2026Updated 2 months ago
- map Illumina metagenomes to genomes!☆39Jan 22, 2026Updated 4 months ago
- Fast taxonomic classification of metagenomic sequencing reads using a protein reference database☆302Updated this week
- Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.☆150Dec 17, 2025Updated 5 months ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Profiler for metagenomics based on NGLess☆13Feb 22, 2024Updated 2 years ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆24Jan 29, 2023Updated 3 years ago
- FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomi…☆67Updated this week
- Deep representation learning for disease prediction based on microbiome data☆63Apr 21, 2023Updated 3 years ago
- A post-processing tool to reclassify Kraken 2 output based on the confidence score and/or minimum minimizer hit groups.☆11Nov 10, 2025Updated 7 months ago
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆305Feb 3, 2026Updated 4 months ago
- 🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results☆249Jan 18, 2024Updated 2 years ago
- ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refse…☆106Apr 23, 2026Updated last month
- A pipeline for high-quality bacterial genome construction using ONT sequencing☆40Sep 22, 2022Updated 3 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.
- Strain Prediction and Analysis with Representative SEquence☆19Dec 8, 2024Updated last year
- Variational autoencoder for metagenomic binning☆328Apr 27, 2026Updated last month
- Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes☆74Dec 1, 2025Updated 6 months ago
- ☆84Sep 13, 2023Updated 2 years ago
- ☆19Nov 16, 2018Updated 7 years ago
- Pan-Genomic Matching Statistics☆57Apr 3, 2024Updated 2 years ago
- A Python package for obtaining, parsing and exploring biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)☆51May 5, 2026Updated last month
- VirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data☆138Apr 9, 2020Updated 6 years ago
- Software used to develop the TCMA database associated with 10.1016/j.chom.2020.12.001.☆15Nov 26, 2023Updated 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 robust, extensible metagenomics pipeline☆175Updated this week
- An integrated pipeline for estimating strain-level genomic variation from metagenomic data☆135Oct 6, 2023Updated 2 years ago
- Histosketching Using Little Kmers☆57May 25, 2023Updated 3 years ago
- Accurate metagenomic profiling && Fast large-scale sequence/genome searching☆217Apr 24, 2026Updated last month
- Very fast ONT basecaller☆52Jun 17, 2022Updated 3 years ago
- Analysing Metagenomic Species (MGS)☆42Nov 12, 2020Updated 5 years ago
- Neural networks for microbe-metabolite interaction analysis☆133Nov 4, 2022Updated 3 years ago