My Conference Talks
A collection of talks I've given at various conferences.
Seqera Fusion x NVIDIA Parabricks for accelerated analysis
Nextflow Summit, Boston
Parabricks is a set of GPU-accelerated analysis tools that now works with the Seqera Fusion file system. This presentation describes how to leverage these two systems together, potential use cases, as well as tips and tricks for implementing similar projects.
From Pipelines to Interactive Analysis: Closing the loop with Seqera Studios
Seqera Webinar, Virtual
Explore how Studios streamlines the entire data lifecycle, enabling seamless transition from pipelines to secure interactive analysis environments.
Event-driven bioinformatics data processing with Nextflow on the Seqera Platform
SLAS2025, San Diego
Modern biological applications such as sequencing or cell imaging generate vast amounts of data, necessitating scalable, reproducible, and easily deployable data processing. An introduction to Nextflow and Seqera Platform showcasing how they can help automate complex data processing pipelines.
Nextflow and database uses: powering data engineering, exploring DuckDB, and beyond
Nextflow Summit, Boston
A deep dive into Nextflow and database technologies. Exploring the evolving landscape of data engineering, the paradigm-shifting potential of DuckDB and Apache Arrow through biobear, and bridging the gap between file-based and database approaches for big data processing.
nf-test at nf-core: empowering scalable and streamlined testing
Nextflow Summit, Barcelona
The evolution of testing at nf-core: from the need for a testing framework, through pytest-workflow adoption, to nf-test for full pipelines, subworkflows and local modules. Highlights include snapshots, tags, CI configuration, and the transition from pytest-workflow to nf-test.
Exploring the State of Machine Learning for Biological Data
Juliacon, Boston
Exploring Julia for biological data analysis with BioJulia and Flux.jl. Discussion of challenges and opportunities using ML on high-dimensional, heterogeneous biological data, with examples of past and future applications.
Unlocking the Power of Genomic Analysis in Julia
Juliacon, Boston
Using Julia for genomic data analysis with IntervalTrees and GenomicFeatures. Covers challenges of large-scale genomic data, integrating multiple data types, and bridging file-based and database approaches.
Using nf-core to create Nextflow workflows
Bioinformatics Regional Resource, Online
nf-test
nf-core/bytesize, Online
Impressions of nf-test from a user perspective. nf-test is a simple test framework for Nextflow pipelines.
nascent
nf-core/bytesize, Online
Workflow automation: Using the Aviti benchtop sequencing system and Nextflow Tower
Nextflow Summit, Barcelona
The Element AVITI System streams sequencing data to AWS, GCP, or local servers during runs, with FASTQ generation via bases2fastq. Partnering with Seqera Labs, we combined Tower event-driven automation with AVITI to simplify cloud setup, enable monitoring, and automate secondary analysis.
Intro to Biotech
Boston Debate League, Online
Pytest workflows/Github actions
nf-core/bytesize, Online
What pytest-workflow is and what we use it for, how we test nf-core/modules, and how we test nf-core pipelines.