bio-flow-cytometry-fcs-handling
Read and manipulate Flow Cytometry Standard (FCS) files. Covers loading data, accessing parameters, and basic data exploration. Use when loading and inspecting flow or mass cytometry data before preprocessing.
npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-flow-cytometry-fcs-handling --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
## Version Compatibility Reference examples tested with: flowCore 2.14+, scanpy 1.10+ Before using code patterns, verify installed versions match. If versions differ: - R: `packageVersion('<pkg>')` then `?function_name` to verify parameters If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying. # FCS File Handling **"Load my FCS files into R or Python"** → Read Flow Cytometry Standard (FCS) files, access channel parameters and metadata, and explore event data for downstream analysis. - R: `flowCore::read.FCS()` or `flowCore::read.flowSet()` for multiple files - Python: `fcsparser.parse()` or `FlowCal.io.FCSData()` ## Load FCS Files **Goal:** Read a single FCS file and inspect its parameters and metadata. **Approach:** Use flowCore's read.FCS with transformation disabled to load raw data, then examine parameter names and descriptions. ```r library(flowCore) # Read single FCS file fcs <- read.FCS('sample.fcs', transformation = FALSE, truncate_max_range = FALSE) # File info print(fcs) # Parameter names colnames(fcs) # Short names pData(parameters(fcs)) # Full metadata including desc
- Version Compatibility
- Load FCS Files
- Load Multiple Files
- Access Expression Data
- Channel Metadata
- Rename Channels
- Subsetting Data
- Merge flowSets
- Write FCS Files
- Sample Metadata
- Basic Visualization
- Check Data Quality
- Convert to Data Frame
- Related Skills
What does the bio-flow-cytometry-fcs-handling skill do?
Read and manipulate Flow Cytometry Standard (FCS) files. Covers loading data, accessing parameters, and basic data exploration. Use when loading and inspecting flow or mass cytometry data before preprocessing.
How do I install it?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-flow-cytometry-fcs-handling --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From FreedomIntelligence/OpenClaw-Medical-Skills, a repository with 2,909 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.