Sustainable data analysis with Snakemake

• Detection and Removal of Hyper-synchronous Artifacts in Massively Parallel Spike Recordings

  2026 Journal of Neuroscience article Neuroscience Neuroscience and Neural Engineering Open access

  6

  citations
• TDP-43 loss induces cryptic polyadenylation in ALS/FTD

  2025 Nature Neuroscience article Medicine Amyotrophic Lateral Sclerosis Research Open access

  33

  citations
• A Hybrid Knowledge- and Data-driven Model for Automatic Assessment of Induced Spiking Patterns in C-fiber Microneurography: Methodological Development

  2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Neuroscience Neuroscience and Neural Engineering Open access

  0

  citations
• Metadata practices for simulation workflows

  2025 Scientific Data data-paper Decision Sciences Scientific Computing and Data Management Open access

  3

  citations
• Metagenomic global survey and in-depth genomic analyses of Ruminococcus gnavus reveal differences across host lifestyle and health status

  2025 Nature Communications article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access

  31

  citations
• A modular and adaptable analysis pipeline to compare slow cerebral rhythms across heterogeneous datasets

  2024 Cell Reports Methods article Neuroscience Neural dynamics and brain function Open access

  19

  citations
• A multi-omics data analysis workflow packaged as a FAIR Digital Object

  2024 GigaScience article Decision Sciences Scientific Computing and Data Management Open access

  14

  citations
• Orchid fruit and root movement analyzed using 2D photographs and a bioinformatics pipeline for processing sequential 3D scans

  2024 Applications in Plant Sciences article Agricultural and Biological Sciences Plant Molecular Biology Research Open access

  1

  citations
• Extensive Phylogenomic Discordance and the Complex Evolutionary History of the Neotropical Cat Genus Leopardus

  2023 Molecular Biology and Evolution article Biochemistry, Genetics and Molecular Biology Genetic diversity and population structure Open access

  34

  citations
• Adjustment of spurious correlations in co-expression measurements from RNA-Sequencing data

  2023 Bioinformatics article Biochemistry, Genetics and Molecular Biology Gene expression and cancer classification Open access

  12

  citations
• Ten quick tips for building FAIR workflows

  2023 PLoS Computational Biology article Decision Sciences Scientific Computing and Data Management Open access

  42

  citations
• Epigenetic memory of coronavirus infection in innate immune cells and their progenitors

  2023 Cell article Immunology and Microbiology Immune responses and vaccinations Open access

  301

  citations
• TDP-43 loss and ALS-risk SNPs drive mis-splicing and depletion of UNC13A

  2022 Nature article Medicine Amyotrophic Lateral Sclerosis Research Open access cited by 15 patents

  561

  citations

13 results