sampleinfo

Ingests CSV/TSV sample metadata, performs statistical analyses, and generates visualization reports for single-cell RNA-seq pipelines.

22|4|Updated May 18, 2021
One-click install
npx skills add https://github.com/pwwang/immunopipe --skill sampleinfo
Or copy as Structured Prompt for Agent
Please help me install this Agent Skill.
Skill: sampleinfo
Source: https://github.com/pwwang/immunopipe/tree/main/skills/sampleinfo
Command: npx skills add https://github.com/pwwang/immunopipe --skill sampleinfo

SYSTEM DOCUMENTATION & REQUIREMENTS

What problem does it solve?

Reads and processes sample metadata files, performs statistical analyses, and generates visualization reports to support downstream analyses in single-cell workflows.

Core Features & Use Cases

  • Ingests CSV/TSV sample metadata with required columns like Sample and RNAData.
  • Applies optional mutations, defaults, and plotting configurations to tailor reports.
  • Produces statistical summaries and visualizations to streamline planning and QC.

Quick Start

Provide the path to your sample_info.csv and run the SampleInfo process to produce the initial statistics and reports.

Frequently Asked Questions about sampleinfo

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I generate visualization reports from sample metadata in an RNA-seq pipeline?

To generate visualization reports from sample metadata, you ingest CSV or TSV files containing required columns like Sample and RNAData, then apply configurable plots and mutaters to produce statistical summaries for downstream analysis.

Can I use a TSV file instead of CSV for sample metadata analysis?

Yes, you can use a TSV file for sample metadata analysis because the process supports flexible separators, allowing you to ingest both CSV and TSV formats while validating required inputs like Sample and RNAData columns.

How do I mutate columns in sample metadata before running statistics?

You mutate columns in sample metadata by applying optional mutations and defaults during ingestion, which configures the tailored statistical summaries and visualization reports for your single-cell RNA-seq workflow.

What columns are required in a sample info file for single-cell RNA-seq processing?

Required columns in a sample info file for single-cell RNA-seq processing include Sample and RNAData, which are validated upon ingestion to ensure proper generation of statistical summaries and downstream pipeline outputs.

Does sample metadata analysis support configurable plots for QC reporting?

Yes, sample metadata analysis supports configurable plots for QC reporting by allowing you to specify plotting configurations during ingestion, which streamlines the generation of statistical summaries and visualizations.

What is the best way to handle sample metadata for single-cell RNA-seq workflows?

The best way to handle sample metadata for single-cell RNA-seq workflows is to ingest metadata files with required columns, apply optional mutations, and generate statistical summaries with configurable plots to support downstream analysis.