- BRM: A statistical method for QTL mapping based on bulked segregant analysis by deep sequencing
- HypercubeME: two hundred million combinatorially complete datasets from a single experiment
- An Integrative Approach for Fine-Mapping Chromatin Interactions
- KofamKOALA: KEGG ortholog assignment based on profile HMM and adaptive score threshold
- SCOT: Rethinking the Classification of Secondary Structure Elements
- Improved linking of motifs to their TFs using domain information
- Assessment of computational methods for the analysis of single-cell ATAC-seq data
- Assessment of computational methods for the analysis of single-cell ATAC-seq data
- Discovery of disease- and drug-specific pathways through community structures of a literature network
- SPDI: Data Model for Variants and Applications at NCBI
- DeepMSA: constructing deep multiple sequence alignment to improve contact prediction and fold-recognition for distant-homology proteins
- SBML2Modelica: Integrating biochemical models within open-standard simulation ecosystems
- Link-HD: a versatile framework to explore and integrate heterogeneous microbial communities
- Impact of quality trimming on the efficiency of reads joining and diversity analysis of Illumina paired-end reads in the context of QIIME1 and QIIME2 microbiome analysis frameworks
- omicplotR: visualizing omic datasets as compositions
- NCutYX: a package for clustering analysis of multilayer omics data
- Cross-lingual Semantic Annotation of Biomedical Literature: Experiments in Spanish and English
- GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database
- RaNA-Seq: Interactive RNA-Seq analysis from FASTQ files to functional analysis
- Correlation of homologous recombination deficiency induced mutational signatures with sensitivity to PARP inhibitors and cytotoxic agents
Whats new in Bioinformatics
Genome Biology
- Assessment of computational methods for the analysis of single-cell ATAC-seq data
- Correlation of homologous recombination deficiency induced mutational signatures with sensitivity to PARP inhibitors and cytotoxic agents
- NanoSatellite: accurate characterization of expanded tandem repeat length and sequence through whole genome long-read sequencing on PromethION
- OrthoFinder: phylogenetic orthology inference for comparative genomics
- Differential co-expression-based detection of conditional relationships in transcriptional data: comparative analysis and application to breast cancer
- Evaluation of commonly used analysis strategies for epigenome- and transcriptome-wide association studies through replication of large-scale population studies
- Correction to: Identifying significantly impacted pathways: a comprehensive review and assessment
- Impact of mouse contamination in genomic profiling of patient-derived models and best practice for robust analysis
- CRUP: a comprehensive framework to predict condition-specific regulatory units
- DESE: estimating driver tissues by selective expression of genes associated with complex diseases or traits