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Use when working with CATALYST for mass-cytometry or flow-cytometry analysis in R/Bioconductor, including preprocessing with prepData, normCytof, assignPrelim, estCutoffs, applyCutoffs, computeSpillma
Use with AI
Install the MCP server or CLI to instantly fetch CATALYST documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/catalyst
Cumulus — cloud-based framework for large-scale single-cell and single-nucleus RNA-seq analysis on Terra/Google Cloud. Provides WDL workflows for demultiplexing (demuxEM, souporcell, demuxlet), count
2 shared topics • 2 shared operations
SCENIC (pySCENIC) — gene regulatory network inference and transcription factor regulon analysis for single-cell RNA-seq data. Infers TF-target gene networks using GRNBoost2/GENIE3, refines regulons vi
2 shared topics • 2 shared operations
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2 shared topics • 2 shared operations
Use this skill for SCTransform normalization of single-cell RNA-seq count matrices. Route here when users ask about variance stabilizing transformation (VST), regularized negative binomial regression
2 shared topics • 2 shared operations
ZINB-WaVE (Zero-Inflated Negative Binomial Wave) for dimensionality reduction and normalization of single-cell RNA-seq data. Fits a zero-inflated negative binomial (ZINB) model to scRNA-seq count matr
2 shared topics • 2 shared operations