Experiments

Searchable full-text extractions: founding hypothesis, core claims, experimental setups, key results and statistics — pulled out of each paper as structure. Search a cell line, an assay or an entity (e.g. HUH7) and find every paper that worked with it. This corpus stands on its own: most entries carry no reproduction assessment (yet).

• Trimmomatic: a decade of feature-rich, high-performance NGS read preprocessing.

  PMID 42178219 · PMC13242794 · Bioinformatics (Oxford, England) · 2026 · 8 claims · 4 setups

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  A high-performance multithreading architecture allows batches of read pairs to be processed independently by a pool of worker threads, scaling efficiently with available hardware.

  manihot same plant wall-clock output cross-tool

• rMAP 2.0: a modular, reproducible, and scalable WDL-Cromwell-Docker workflow for genomic analysis of ESKAPEE pathogens.

  PMID 41782684 · PMC12955837 · Bioinformatics advances · 2026 · 8 claims · 8 setups

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  rMAP 2.0 standardizes end-to-end bacterial WGS analysis (QC, trimming, assembly, annotation, AMR/virulence/mobile-element profiling, sequence typing, pangenome inference, phylogenetics) via containerized WDL/Cromwell execution

  enterobacterales illumina aeruginosa pneumoniae whole-genome wgs amr