Rob Patro

Career Trajectory

Research Cluster Map

Direct collaborators. Node size = influence, colour = community, dashed = past collaboration.

• Highly Constrained Kinetic Models for Single-Cell Gene Expression Analysis

  bioRxiv (Cold Spring Harbor Laboratory) · 2026-05-25 · 1 citations

• mim: A lightweight auxiliary index to enable fast, parallel, gzipped FASTQ parsingPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-11-27

• Tree-based differential testing using inferential uncertainty for RNA-seq

  Genome Research · 2025-08-21 · 1 citations

• <tt>Oarfish</tt>: enhanced probabilistic modeling leads to improved accuracy in long read transcriptome quantification

  Bioinformatics · 2025-07-01 · 20 citations

• Alevin-fry-atac enables rapid and memory frugal mapping of single-cell ATAC-seq data using virtual colors for accurate genomic pseudoalignment

  Bioinformatics · 2025-07-01 · 1 citations

• QCatch: A framework for quality control assessment and analysis of single-cell sequencing dataPreprint

  Bioinformatics · 2025-06-20

• DeepSeal: Empowering clinical researchers to analyze clinicogenomic data with an intuitive chat-based interface.

  Journal of Clinical Oncology · 2025-05-28

• Kaminari: a resource-frugal index for approximate colored <i>k</i> -mer queriesPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-05-21

• Contributions of the Petabyte Scale Sequence Search Codeathon toward efforts to scale sequence-based searches on SRAPreprint

  ArXiv.org · 2025-05-09

• Alevin-fry-atac enables rapid and memory frugal mapping of single-cell ATAC-seq data using virtual colors for accurate genomic pseudoalignmentPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2024-12-02

• Collapsible tree: interactive web app to present collapsible hierarchies

  Bioinformatics · 2024-10-26 · 2 citations

• Where the Patterns Are: Repetition-Aware Compression for Colored de Bruijn Graphs ^*

  Journal of Computational Biology · 2024-10-01 · 11 citations

• A renewed call for open artificial intelligence in biomedicinePreprint

  2024-09-16

• A replicable and modular benchmark for long-read transcript quantification methodsPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2024-07-31

• Swimming downstream: statistical analysis of differential transcript usage following Salmon quantification

  UNC Libraries · 2024-07-27

• A junction coverage compatibility score to quantify the reliability of transcript abundance estimates and annotation catalogs

  UNC Libraries · 2024-07-27

• Where the patterns are: repetition-aware compression for colored de Bruijn graphs ^⋆Preprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2024-07-13