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argNorm: normalization of antibiotic resistance gene annotations to the Antibiotic Resistance Ontology (ARO)

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Svetlana Ugarcina Perovic and others
Bioinformatics, btaf173, https://doi.org/10.1093/bioinformatics/btaf173
Published: 16 April 2025
Journal Article
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GSLab: Open-Source Platform for Advanced Phasor Analysis in Fluorescence Microscopy

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Alexander Vallmitjana and others
Bioinformatics, btaf162, https://doi.org/10.1093/bioinformatics/btaf162
Published: 15 April 2025
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MS1FA: Shiny App for the Annotation of Redundant Features in Untargeted Metabolomics Datasets

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Ruibing Shi and others
Bioinformatics, btaf161, https://doi.org/10.1093/bioinformatics/btaf161
Published: 15 April 2025
Journal Article

PyEvoCell: an LLM-augmented single-cell trajectory analysis dashboard

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Sachin Mathur and others
Bioinformatics, Volume 41, Issue 4, April 2025, btaf158, https://doi.org/10.1093/bioinformatics/btaf158
Published: 10 April 2025
Journal Article

Sawfish: improving long-read structural variant discovery and genotyping with local haplotype modeling

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Christopher T Saunders and others
Bioinformatics, Volume 41, Issue 4, April 2025, btaf136, https://doi.org/10.1093/bioinformatics/btaf136
Published: 09 April 2025
Journal Article

CoverM: read alignment statistics for metagenomics

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Samuel T N Aroney and others
Bioinformatics, Volume 41, Issue 4, April 2025, btaf147, https://doi.org/10.1093/bioinformatics/btaf147
Published: 07 April 2025
Journal Article

Realfreq: real-time base modification analysis for nanopore sequencing

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Suneth Samarasinghe and others
Bioinformatics, Volume 41, Issue 4, April 2025, btaf151, https://doi.org/10.1093/bioinformatics/btaf151
Published: 07 April 2025
Journal Article

uHAF: a unified hierarchical annotation framework for cell type standardization and harmonization

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Haiyang Bian and others
Bioinformatics, Volume 41, Issue 4, April 2025, btaf149, https://doi.org/10.1093/bioinformatics/btaf149
Published: 02 April 2025
Journal Article

CancerTrialMatch: a computational resource for the management of biomarker-based clinical trials at a community cancer center

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Padmapriya Swaminathan and others
Bioinformatics, Volume 41, Issue 4, April 2025, btaf144, https://doi.org/10.1093/bioinformatics/btaf144
Published: 31 March 2025
Journal Article
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XPRS: A Tool for Interpretable and Explainable Polygenic Risk Score

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Na Yeon Kim and Seunggeun Lee
Bioinformatics, btaf143, https://doi.org/10.1093/bioinformatics/btaf143
Published: 31 March 2025
Journal Article

wgatools: an ultrafast toolkit for manipulating whole-genome alignments

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Wenjie Wei and others
Bioinformatics, Volume 41, Issue 4, April 2025, btaf132, https://doi.org/10.1093/bioinformatics/btaf132
Published: 27 March 2025
Journal Article

MR.RGM: an R package for fitting Bayesian multivariate bidirectional Mendelian randomization networks

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Bitan Sarkar and Yang Ni
Bioinformatics, Volume 41, Issue 4, April 2025, btaf130, https://doi.org/10.1093/bioinformatics/btaf130
Published: 24 March 2025
Journal Article

CytoSimplex: visualizing single-cell fates and transitions on a simplex

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Jialin Liu and others
Bioinformatics, Volume 41, Issue 4, April 2025, btaf119, https://doi.org/10.1093/bioinformatics/btaf119
Published: 22 March 2025
Journal Article

NanoASV: a snakemake workflow for reproducible field-based Nanopore full-length 16S metabarcoding amplicon data analysis

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Arthur Cousson and others
Bioinformatics, Volume 41, Issue 3, March 2025, btaf089, https://doi.org/10.1093/bioinformatics/btaf089
Published: 20 March 2025
Journal Article

MAFin: motif detection in multiple alignment files

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Michail Patsakis and others
Bioinformatics, Volume 41, Issue 4, April 2025, btaf125, https://doi.org/10.1093/bioinformatics/btaf125
Published: 19 March 2025
Journal Article

VisionMol: a novel virtual reality tool for protein molecular structure visualization and manipulation

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Xin Wang and others
Bioinformatics, Volume 41, Issue 3, March 2025, btaf118, https://doi.org/10.1093/bioinformatics/btaf118
Published: 17 March 2025
Journal Article

mastR: an R package for automated identification of tissue-specific gene signatures in multi-group differential expression analysis

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Jinjin Chen and others
Bioinformatics, Volume 41, Issue 3, March 2025, btaf114, https://doi.org/10.1093/bioinformatics/btaf114
Published: 17 March 2025
Journal Article

Lit-OTAR framework for extracting biological evidences from literature

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Santosh Tirunagari and others
Bioinformatics, Volume 41, Issue 4, April 2025, btaf113, https://doi.org/10.1093/bioinformatics/btaf113
Published: 17 March 2025
Journal Article

nf-core/pacvar: a pipeline for analyzing long-read PacBio whole genome and repeat expansion sequencing data

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Tanya Jain and Claire Clelland
Bioinformatics, Volume 41, Issue 4, April 2025, btaf116, https://doi.org/10.1093/bioinformatics/btaf116
Published: 17 March 2025
Journal Article

AlphaPulldown2—a general pipeline for high-throughput structural modeling

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Dmitry Molodenskiy and others
Bioinformatics, Volume 41, Issue 3, March 2025, btaf115, https://doi.org/10.1093/bioinformatics/btaf115
Published: 14 March 2025