project-architecture-patterns
Architecture patterns for rRNA-Phylo project including FastAPI backend design, service organization, async task processing with Celery, Pydantic schemas, testing with pytest, Biopython integration, and API desi...
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Architecture patterns for rRNA-Phylo project including FastAPI backend design, service organization, async task processing with Celery, Pydantic schemas, testing with pytest, Biopython integration, and API desi...
Advanced Maximum Likelihood phylogenetics with model selection (AIC/BIC), tree search algorithms (NNI/SPR/TBR), and performance optimization (Numba/GPU)
Machine learning integration patterns for rRNA-Phylo covering three use cases - rRNA sequence classification (supervised learning with sklearn/PyTorch), multi-tree consensus (ensemble methods), and generative t...
Comprehensive guide to phylogenetic tree visualization including matplotlib (Python), ggtree (R), and publication-quality figure generation. Covers rectangular, circular, radial layouts, bootstrap annotations,...
Guidelines for rRNA detection and prediction including prokaryotic (16S, 23S, 5S) and eukaryotic (18S, 28S, 5.8S, 5S) ribosomal RNA. Covers sequence patterns, secondary structure, HMM models, blast-based detect...
Comprehensive guide to phylogenetic tree building methods including distance-based (UPGMA, Neighbor-Joining), maximum likelihood (RAxML, IQ-TREE), and Bayesian inference (MrBayes). Covers multiple sequence alig...
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