ViBE: a hierarchical BERT model to identify viruses using metagenome sequencing data
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Sep 6, 2022 - Python
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virus-classification
Here are 9 public repositories matching this topic...
Alignment-free method to identify and analyse discriminant genomic subsequences within pathogen sequences
machine-learning svm feature-extraction alignment-free castor taxonomic-classification kmers rfe virus-classification castor-krfe svm-rfe
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Feb 26, 2023 - Python
Complete collection of 6 bioinformatics projects — covering sequence alignment, multiple alignment, profile HMMs, phylogenetic trees, and virus genome classification using neural networks.
profile machine-learning bioinformatics computational-biology phylogenetic-trees phylogenetics dynamic-programming hidden-markov-model sequence-alignment multiple-sequence-alignment virus-classification star-alignment
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Nov 5, 2025 - Jupyter Notebook
A snakemake pipeline for identifying crAss-like bacteriophages in metagenomes
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Feb 27, 2023 - Python
[a.a. 23/24] A.Ture, G.Pagano
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Apr 10, 2024 - Python
Evaluation of Statistical Linear Models for Genome Virus Classification
machine-learning bayesian taxonomic-classification markov-chain-model kmers virus-classification statistical-linear-models
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Mar 15, 2021 - Jupyter Notebook
Thesis projects
phylogenetics variational-inference taxonomic-classification generative-models markov-chain-model k-mers virus-classification variational-bayesian-inference statistical-linear-models
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Jun 19, 2024
[Features extraction method] You can find the new version of CASTOR_KRFE at https://github.com/bioinfoUQAM/CASTOR_KRFE
svm alignment-free castor taxonomic-classification kmers rfe virus-classification kmer-extraction castor-krfe svm-rfe
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Jul 3, 2020 - Python
Binarized mixture-of-experts classifier that identifies which of 58 virus variants a single short Illumina read came from, validated with genome-level 5-fold cross-validation on 543 real NCBI isolates.
bioinformatics genomics reproducible-research cross-validation metagenomics pytorch kmer sequence-classification edge-computing binarized-neural-networks mixture-of-experts virus-classification
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Sep 11, 2026 - Python
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