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migec 2.5.1 documentation

  • Installation
  • Examples
  • Layouts
  • Bring your own UMI
  • Assays
  • Commands
  • Post-processing
    • Method
    • Reference
  • GitHub
  • Installation
  • Examples
  • Layouts
  • Bring your own UMI
  • Assays
  • Commands
  • Post-processing
  • Method
  • Reference
  • GitHub

Section Navigation

  • File formats
  • Speed and memory
  • Pipelines: Nextflow and SLURM
  • Roadmap
  • Reference

Reference#

page

what is in it

File formats

the inter-stage contract: tags, .mig buckets, every TSV column

Speed and memory

what each stage costs, what it scales with, and how the thread invariance is asserted

Pipelines

the nf-core-style modules with their ctDNA and AIRR subworkflows, the SLURM templates, and the three things that go wrong in a pipeline

Roadmap

what is done, what is not, and what the version numbers mean

  • File formats
  • Speed and memory
  • Pipelines: Nextflow and SLURM
  • Roadmap

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Validation — the spike-in metric

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File formats

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