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bio-crispr-screens-hit-calling - Choose and reconcile CRISPR screen hit callers

Selects CRISPR screen hit-calling methods by experimental design, reconciles discordant results, and applies consensus, multiple-testing, effect-size, and validation rules.

Tags

Updated: 2026-10-06
CRISPR screenshit callingMAGeCKBAGEL2drugZJACKSChronosCERESconsensus analysisstatistical methods

Capabilities

Choose design-matched methodsCompare statistical modelsReconcile discordant hit callsBuild consensus hit tiers

Typical Inputs

CRISPR screen count matrixExperimental design metadataScreen quality results

Typical Outputs

Method selection recommendationRanked hit listsConsensus hit tiers

What this skill does

  • Choose design-matched methods
  • Compare statistical models
  • Reconcile discordant hit calls
  • Build consensus hit tiers
  • Apply second-guide filtering
  • Gate validation by confidence
  • Audit unstable reruns

Inputs

  • CRISPR screen count matrix
  • Experimental design metadata
  • Screen quality results
  • Hit-calling result tables

Outputs

  • Method selection recommendation
  • Ranked hit lists
  • Consensus hit tiers
  • Disagreement explanations
  • Second-guide filtered calls
  • Validation gating recommendations

Requirements

  • MAGeCK 0.5.9 or newer
  • BAGEL2 1.0 or newer
  • drugZ August 2019 or newer
  • JACKS 0.2.0 or newer
  • Chronos 2.0 or newer
  • CERES 1.0 or newer
  • pandas 2.2 or newer
  • numpy 1.26 or newer
  • scipy 1.12 or newer
  • statsmodels 0.14 or newer

Source

  • Spec: SKILL.md

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