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AFITbin: a metagenomic contig binning method using aggregate l-mer frequency based on initial and terminal nucleotides.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05859-7
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PyChelator: a Python-based Colab and web application for metal chelator calculations.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05858-8
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- Article
Orthanq: transparent and uncertainty-aware haplotype quantification with application in HLA-typing.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05832-4
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- Article
Enhancing SNV identification in whole-genome sequencing data through the incorporation of known genetic variants into the minimap2 index.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05862-y
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expHRD: an individualized, transcriptome-based prediction model for homologous recombination deficiency assessment in cancer.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05854-y
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METASEED: a novel approach to full-length 16S rRNA gene reconstruction from short read data.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05837-z
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- Article
A strategy to detect metabolic changes induced by exposure to chemicals from large sets of condition-specific metabolic models computed with enumeration techniques.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05845-z
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SimSpliceEvol2: alternative splicing-aware simulation of biological sequence evolution and transcript phylogenies.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05853-z
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- Article
gcplyr: an R package for microbial growth curve data analysis.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05817-3
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- Article
ProcaryaSV: structural variation detection pipeline for bacterial genomes using short-read sequencing.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05843-1
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- Article
Deepvirusclassifier: a deep learning tool for classifying SARS-CoV-2 based on viral subtypes within the coronaviridae family.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05754-1
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SGCP: a spectral self-learning method for clustering genes in co-expression networks.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05848-w
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- Article
Unsupervised modeling of mutational landscapes of adeno-associated viruses viability.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05823-5
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- Article
Hitac: a hierarchical taxonomic classifier for fungal ITS sequences compatible with QIIME2.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05839-x
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- Article
Filter bank temporally local multivariate synchronization index for SSVEP-based BCI.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05838-y
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- Article
penalizedclr: an R package for penalized conditional logistic regression for integration of multiple omics layers.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05850-2
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- Article
Can large language models understand molecules?
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05847-x
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- Article
Improving somatic exome sequencing performance by biological replicates.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05742-5
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- Article
Correction: Improving somatic exome sequencing performance by biological replicates.
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- 2024
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- Correction Notice
iProL: identifying DNA promoters from sequence information based on Longformer pre-trained model.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05849-9
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- Article
Entourage: all-in-one sequence analysis software for genome assembly, virus detection, virus discovery, and intrasample variation profiling.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05846-y
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- Article
Comparing preprocessing strategies for 3D-Gene microarray data of extracellular vesicle-derived miRNAs.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05840-4
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- Article
iGenSig-Rx: an integral genomic signature based white-box tool for modeling cancer therapeutic responses using multi-omics data.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05835-1
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- Article
PxBLAT: an efficient python binding library for BLAT.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05844-0
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- Article
Leveraging permutation testing to assess confidence in positive-unlabeled learning applied to high-dimensional biological datasets.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05834-2
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- Article
EPI-Trans: an effective transformer-based deep learning model for enhancer promoter interaction prediction.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05784-9
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- Article
SATIN: a micro and mini satellite mining tool of total genome and coding regions with analysis of perfect repeats polymorphism in coding regions.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05842-2
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- Article
CPMI: comprehensive neighborhood-based perturbed mutual information for identifying critical states of complex biological processes.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05836-0
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- Article
A deep learning framework for predicting disease-gene associations with functional modules and graph augmentation.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05841-3
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- Article
PyMulSim: a method for computing node similarities between multilayer networks via graph isomorphism networks.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05830-6
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- Article
CAraCAl: CAMML with the integration of chromatin accessibility.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05833-3
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- Article
Dyport: dynamic importance-based biomedical hypothesis generation benchmarking technique.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05812-8
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- Article
StatiCAL: an interactive tool for statistical analysis of biomedical data and scientific valorization.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05829-z
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- Article
Integrating transformers and many-objective optimization for drug design.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05822-6
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- Article
dgfr: an R package to assess sequence diversity of gene families.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05826-2
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- Article
bsgenova: an accurate, robust, and fast genotype caller for bisulfite-sequencing data.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05821-7
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- Article
RNA-clique: a method for computing genetic distances from RNA-seq data.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05811-9
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- Article
GATSol, an enhanced predictor of protein solubility through the synergy of 3D structure graph and large language modeling.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05820-8
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- Article
A guided network estimation approach using multi-omic information.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05778-7
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- Article
Equivariant score-based generative diffusion framework for 3D molecules.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05810-w
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- Article
SEDA 2024 update: enhancing the SEquence DAtaset builder for seamless integration into automated data analysis pipelines.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05818-2
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- Article
Improving replicability in single-cell RNA-Seq cell type discovery with Dune.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05814-6
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- Article
Maboss for HPC environments: implementations of the continuous time Boolean model simulator for large CPU clusters and GPU accelerators.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05815-5
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- Article
HMMF: a hybrid multi-modal fusion framework for predicting drug side effect frequencies.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05806-6
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- Article
PrCRS: a prediction model of severe CRS in CAR-T therapy based on transfer learning.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05804-8
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- Article
Semi-quantitative group testing for efficient and accurate qPCR screening of pathogens with a wide range of loads.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05798-3
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- Publication type:
- Article
Characterization of telomere variant repeats using long reads enables allele-specific telomere length estimation.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05807-5
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- Article
AMRViz enables seamless genomics analysis and visualization of antimicrobial resistance.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05792-9
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- Publication type:
- Article
Readsynth: short-read simulation for consideration of composition-biases in reduced metagenome sequencing approaches.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05809-3
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- Publication type:
- Article
MR-GGI: accurate inference of gene–gene interactions using Mendelian randomization.
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- BMC Bioinformatics, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s12859-024-05808-4
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- Article