Found: 60
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scDAC: deep adaptive clustering of single-cell transcriptomic data with coupled autoencoder and Dirichlet process mixture model.
- Published in:
- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae198
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PyCoM: a python library for large-scale analysis of residue–residue coevolution data.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae166
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A machine-readable specification for genomics assays.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae168
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- Article
pyaging: a Python-based compendium of GPU-optimized aging clocks.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae200
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ArCH: improving the performance of clonal hematopoiesis variant calling and interpretation.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae121
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Clustering single-cell multi-omics data via graph regularized multi-view ensemble learning.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae169
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- Article
Hi-GeoMVP: a hierarchical geometry-enhanced deep learning model for drug response prediction.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae204
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Efficient cytometry analysis with FlowSOM in Python boosts interoperability with other single-cell tools.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae179
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Effect of tokenization on transformers for biological sequences.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae196
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Integrative annotation scores of variants for impact on RNA binding protein activities.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae181
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Improving the performance of supervised deep learning for regulatory genomics using phylogenetic augmentation.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae190
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- Article
DrivR-Base: a feature extraction toolkit for variant effect prediction model construction.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae197
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The IDSM mass spectrometry extension: searching mass spectra using SPARQL.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae174
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Prioritization of oligogenic variant combinations in whole exomes.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae184
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longmixr: a tool for robust clustering of high-dimensional cross-sectional and longitudinal variables of mixed data types.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae137
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shinyExprPortal: a configurable 'shiny' portal for sharing analysis of molecular expression data.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae172
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- Article
POCP-nf: an automatic Nextflow pipeline for calculating the percentage of conserved proteins in bacterial taxonomy.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae175
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- Article
Admix-kit: an integrated toolkit and pipeline for genetic analyses of admixed populations.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae148
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- Article
ICARUS v3, a massively scalable web server for single-cell RNA-seq analysis of millions of cells.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae167
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- Article
Designing efficient randstrobes for sequence similarity analyses.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae187
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Advancing entity recognition in biomedicine via instruction tuning of large language models.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae163
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- Article
GAUSS: a summary-statistics-based R package for accurate estimation of linkage disequilibrium for variants, Gaussian imputation, and TWAS analysis of cosmopolitan cohorts.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae203
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Rapid multiple protein sequence search by parallel and heterogeneous computation.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae151
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- Article
EpiCarousel: memory- and time-efficient identification of metacells for atlas-level single-cell chromatin accessibility data.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae191
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- Article
DrugMGR: a deep bioactive molecule binding method to identify compounds targeting proteins.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae176
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- Article
VirusPredictor: XGBoost-based software to predict virus-related sequences in human data.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae192
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- Article
Regional analysis to delineate intrasample heterogeneity with RegionalST.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae186
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- Article
GraphPath: a graph attention model for molecular stratification with interpretability based on the pathway–pathway interaction network.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae165
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- Article
AleRax: a tool for gene and species tree co-estimation and reconciliation under a probabilistic model of gene duplication, transfer, and loss.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae162
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- Article
Icarust, a real-time simulator for Oxford Nanopore adaptive sampling.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae141
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- Article
GINSA: an accumulator for paired locality and next-generation small ribosomal subunit sequence data.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae152
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Integrating physics in deep learning algorithms: a force field as a PyTorch module.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae160
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- Article
FPLS-DC: functional partial least squares through distance covariance for imaging genetics.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae173
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- Article
VarChat: the generative AI assistant for the interpretation of human genomic variations.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae183
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- Article
PyCoMo: a python package for community metabolic model creation and analysis.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae153
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- Article
rnaCrosslinkOO: an object-oriented R package for the analysis of RNA structural data generated by RNA crosslinking experiments.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae193
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- Article
TemStaPro: protein thermostability prediction using sequence representations from protein language models.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae157
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- Article
Literature mining discerns latent disease–gene relationships.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae185
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- Article
CLAUDIO: automated structural analysis of cross-linking data.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae146
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- Article
ViNe-Seg: deep-learning-assisted segmentation of visible neurons and subsequent analysis embedded in a graphical user interface.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae177
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- Article
3Dmapper: a command line tool for BioBank-scale mapping of variants to protein structures.
- Published in:
- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae171
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- Article
CONSULT-II: accurate taxonomic identification and profiling using locality-sensitive hashing.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae150
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- Article
EpiSegMix: a flexible distribution hidden Markov model with duration modeling for chromatin state discovery.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae178
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- Publication type:
- Article
MotGen: a closed-loop bacterial motility control framework using generative adversarial networks.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae170
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- Article
phylaGAN: data augmentation through conditional GANs and autoencoders for improving disease prediction accuracy using microbiome data.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae161
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- Article
Contrastive pre-training and 3D convolution neural network for RNA and small molecule binding affinity prediction.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae155
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- Article
A model-based hierarchical Bayesian approach to Sholl analysis.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae156
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- Article
MIKE: an ultrafast, assembly-, and alignment-free approach for phylogenetic tree construction.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae154
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- Publication type:
- Article
HyperTMO: a trusted multi-omics integration framework based on hypergraph convolutional network for patient classification.
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- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae159
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- Publication type:
- Article
CTEC: a cross-tabulation ensemble clustering approach for single-cell RNA sequencing data analysis.
- Published in:
- Bioinformatics, 2024, v. 40, n. 4, p. 1, doi. 10.1093/bioinformatics/btae130
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- Article