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Orchestrates the cell-free DNA / liquid-biopsy pipeline from plasma sequencing to tumor monitoring, forking tumor-naive (screening) vs tumor-informed (MRD), and chaining pre-analytic QC, UMI/duplex error-suppression (fgbio), fragment QC, ichorCNA tumor fraction (sWGS) or VarDict low-VAF calling (panel), CHIP subtraction against matched WBC, optional fragmentomics/methylation, and longitudinal tracking. Use when treating pre-analytics as the irreversible sensitivity ceiling (tube/time-to-plasma/hemolysis), running error-suppression BEFORE calling (single-strand consensus does not remove deamination; only duplex does), reporting a VAF only with input genome-equivalents (TF ~ 2x VAF only for clonal-het-diploid), subtracting CHIP before reporting somatic, or keeping tube/panel/pipeline identical across a longitudinal MRD series. Hands mechanism to the liquid-biopsy component skills; not a re-teach of any single step.
bio-workflows-liquid-biopsy-pipeline is an agent skill entry in ChatHome Skills, sourced from GitHub Skill Search and scored 58/100. ## Version Compatibility Reference examples tested with: BWA 0.7.17+, VarDict 1.8+, fgbio 2.1+, ichorCNA 0.6.0+, FinaleToolkit 0.9+ (the `delfi` param was `auto. As an agent skill, it packages a reusable instruction set that AI coding agents such as Codex and Claude Code can load to perform this task without hand-written glue code. ChatHome Skills discovered this entry through its daily ingest of official registries and GitHub discovery queries, and re-verifies repository facts, freshness signals, and install metadata on every run. The quality score weighs official-registry presence, a working install command, license clarity, GitHub star trajectory, and repository freshness — the full formula is on the Sources page. The install command above is ready to copy. Review the last-pushed date and repository status before adding bio-workflows-liquid-biopsy-pipeline to a production agent workflow; the snapshot facts below are point-in-time values from the most recent ingest.
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## Version Compatibility Reference examples tested with: BWA 0.7.17+, VarDict 1.8+, fgbio 2.1+, ichorCNA 0.6.0+, FinaleToolkit 0.9+ (the `delfi` param was `autosomes` before 0.9, r