Bioinformatics
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TSvelo: Comprehensive RNA velocity by modeling the cascade of gene regulation, transcription and splicing
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Permute-match tests detect significant correlations between time series despite nonstationarity and limited replicates
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PathoFact 2.0: An Integrative Pipeline for Predicting Antimicrobial Resistance Genes, Virulence Factors, Toxins and Biosynthetic Gene Clusters in Metagenomes
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FEDRANN: effective long-read overlap detection based on dimensionality reduction and approximate nearest neighbors
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METRIN-KG: A knowledge graph integrating plant metabolites, traits, and biotic interactions
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DUAL: deep unsupervised simultaneous simulation and denoising for cryo-electron tomography
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Celldetective: an AI-enhanced image analysis tool for unraveling dynamic cell interactions
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TopoMetry systematically learns and evaluates the latent geometry of single-cell data
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TissueFormer: Extending single-cell foundation models to predict population-level phenotypes
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Sample-level modeling of single-cell data at scale with tinydenseR
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