Alexander Kanitz

The GA4GH Workflow Execution Service: A Standard API for Workflow Execution and Management in Genomics

The paper introduces the GA4GH Workflow Execution Service API, which standardizes workflow execution across different compute environments and demonstrates its cross-site functionality.

Beyond benchmarking: an expert-guided consensus approach to spatially aware clustering

The paper introduces SACCELERATOR, a framework for spatially aware clustering that improves benchmarking by incorporating expert feedback and consensus analysis across diverse datasets.

Extensible benchmarking of methods that identify and quantify polyadenylation sites from RNA-seq data

The paper benchmarks eight tools for identifying and quantifying alternative polyadenylation sites from RNA-seq data using real, synthetic, and 3'-end sequencing data.

ZARP: An automated workflow for processing of RNA-seq data

ZARP is an RNA-seq analysis workflow that automates data processing using Snakemake, reducing hands-on time for users by integrating best practices and generating detailed reports.