bio-workflows-cytometry-pipeline

Name: bio-workflows-cytometry-pipeline
Rating: 5 (1 reviews)
Author: bg-szy

End-to-end flow, spectral, and mass cytometry (CyTOF) pipeline from raw FCS files to differentially abundant/expressed cell populations. Orchestrates the read -> compensate/unmix -> transform -> QC -> doublet-removal -> cluster-or-gate -> annotate -> diffcyt DA/DS chain with flowCore/CATALYST/diffcyt, branching on instrument type and on clustering-vs-gating. Use when processing a cytometry experim

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Atualizado há 15 dias

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Version Compatibility

Reference examples tested with: CATALYST 1.26+, diffcyt 1.22+, FlowSOM 2.10+, flowCore 2.14+, flowWorkspace 4.14+, flowStats 4.14+, edgeR 4.0+, limma 3.58+, ggplot2 3.5+; Python (partial alt) flowkit 1.1+.

Before using code patterns, verify installed versions match. If versions differ:

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Python: pip show <package> then help(module.function) to check signatures

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