liudan111 / EvoMILLinks
Prediction of virus-host association using protein language models and multiple instance learning
☆17Updated last year
Alternatives and similar repositories for EvoMIL
Users that are interested in EvoMIL are comparing it to the libraries listed below
Sorting:
- ☆24Updated last year
- Nextflow pipeline for the computation of structure-based MSAs with AlphaFold2 models☆12Updated 2 years ago
- Protein Sequence Annotation with Language Models☆21Updated 3 weeks ago
- Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.☆31Updated last week
- Cython bindings and Python interface to trimAl, a tool for automated alignment trimming. Now with SIMD!☆25Updated last month
- Maximum likelihood structural phylogenetics by including Foldseek 3Di characters. Supporting Information for Puente-Lelievre et al. 2023n…☆21Updated last month
- ☆11Updated 3 months ago
- MGM (Microbial General Model) as a large-scaled pretrained language model for interpretable microbiome data analysis.☆28Updated 2 months ago
- Universal and efficient core gene phylogeny with Foldseek and ProstT5☆67Updated last week
- A package for designing activity-informed nucleic acid diagnostics for viruses.☆32Updated 2 years ago
- Associated code for EvoWeaver publication☆15Updated last month
- Phage virion protein classifier☆12Updated 7 months ago
- Software for predicting translation initiation rates in bacteria☆26Updated 7 months ago
- DeepECtransformer☆26Updated last year
- A command line tool to identify and annotate small proteins in microbial sequencing datasets.☆23Updated 2 years ago
- antimicrobial peptide prediction in R☆31Updated 6 months ago
- A machine learning model for the prediction of optimal growth temperature of microorganisms and enzyme catalytic optima☆57Updated 4 years ago
- DeepSig - Predictor of signal peptides in proteins based on deep learning☆26Updated 2 years ago
- Workflow to download, process, and explore microbial RNA-seq data from NCBI SRA☆17Updated 7 months ago
- Untargeted metabolomics workflow for large-scale data processing and analysis implemented in Snakemake☆26Updated 5 months ago
- The 3DFI pipeline predicts the 3D structure of proteins and searches for structural homology in the 3D space.☆19Updated last year
- Cython bindings and Python interface to MUSCLE v5, a highly efficient and accurate multiple sequence alignment software.☆21Updated last year
- Python Implementation of Codon Adaption Index☆37Updated 2 years ago
- Metagenome analysis using the Kraken software suite☆32Updated 2 years ago
- A software-suite to perform multiple protein structure alignment and structure feature extraction.☆29Updated last year
- SMBGC Annotation using Neural Networks Trained on Interpro Signatures☆27Updated 2 months ago
- A Python package for discovery, annotation, and analysis of gene clusters in genomics or metagenomics data sets.☆21Updated 3 years ago
- A flexible and modular software suite for domain-based gene neighborhood and protein search, extraction, and clustering.☆21Updated 3 months ago
- Python bindings for the TaxonKit library☆41Updated last month
- GCN classifier for phage taxanomy classification☆31Updated 7 months ago