DotMatch

User Guide

  • Getting Started
  • Command Reference
  • CRISPR Count First Run
  • DotMatch to scverse for Perturb-seq and Feature Barcodes
  • Streaming Python API
  • DotMatch AssaySpec v1
  • DotMatch CRISPR Count QC
  • DotMatch Barcode Panel Design
  • DotMatch Workbench
  • DotMatch Proposals, Performance Ideas, and Bioinformatics Adoption Roadmap

Reference

  • DotMatch Public Schemas
  • Methods and Citation Template
  • Citation Flywheel
  • Bioinformatics Evaluation Packet
  • External Review Packet
  • DotMatch Evaluation Protocol
  • DotMatch Workflow Integration Kit
  • DotMatch Workflow Integration Roadmap
  • Packaging Notes
  • Release Process
  • Workflow Submission Pack
  • Reviewer Evidence Matrix
  • Commercial Boundary
  • Evidence Packet v1

Evidence and Boundaries

  • Trust, Scope, and Evidence
  • DotMatch Evidence Notes
  • Barcode Validation Notes
  • Usability Comparison
  • Native Comparator Scope
  • Benchmark Report
  • DotMatch Evidence Gallery

Detailed Reports

  • Amplicon/Panel Assignment Evidence
  • Barcode Demultiplexing Benchmark
  • Barcode Panel Design Benchmark
  • BCL Demultiplexing Benchmark
  • CRISPR Comparison Evidence
  • Feature Barcode Assignment Evidence
  • Experimental GPU Acceleration Benchmark
  • Production CRISPR CPU vs Metal
  • DotMatch Performance Improvements - 2026-07-05
  • Native Edlib Benchmark Report
  • Oligo/Adapter Assignment Evidence
  • Perturb-Seq And CRISPR Guide-Capture Assignment Evidence
  • Public CRISPR Workflow Comparator
  • Real CRISPR Benchmark
  • DotMatch Report Examples
  • Amplicon primer-start assignment: ARTIC V3 public lane
  • Barcode autopsy: weak signal and unsafe rescue
  • Public barcode demux: SRP009896 exact-prefix lane
  • Barcode failure fixture: unsafe one-edit correction
  • Barcode failure fixture: wrong offset and invalid windows
  • Classic BCL parser milestone: 10x tiny-BCL lane
  • Feature barcode assignment: 10x TotalSeq-B public lane
  • Oligo/adapter prefix assignment: TruSeq R1 public lane
  • CRISPR guide capture extraction: 10x GEM-X public lane
  • Public CRISPR guide counting: Yusa/MAGeCK lane
  • Barcode Troubleshooting Report
  • DotMatch Public Use Records
  • DotMatch Public Use Record Template
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