Generate end-to-end immunopipe TOML configurations for RNA and TCR/BCR analyses.
npx skills add https://github.com/pwwang/immunopipe --skill immunopipe-config
Please help me install this Agent Skill. Skill: immunopipe-config Source: https://github.com/pwwang/immunopipe/tree/main/skills/immunopipe-config Command: npx skills add https://github.com/pwwang/immunopipe --skill immunopipe-config
Generates end-to-end immunopipe pipeline configurations by assessing data type (RNA with or without TCR/BCR) and analysis goals, routing to the appropriate process skills for detailed configuration.
Start by running the immunopipe-config skill to generate a new TOML config and route to the appropriate process skills.
High-intent search queries and answers about installing and using this skill.
You generate an immunopipe configuration by using a routing skill that assesses your RNA-seq data type and analysis goals to produce a complete TOML skeleton. It determines essential and optional processes, then configures pipeline-level options for immediate execution.
Yes, you can configure pipelines for RNA-only analyses. The skill evaluates your specific data type, routing RNA-only inputs to generate a tailored configuration skeleton that excludes unnecessary TCR/BCR processes while validating the resulting TOML.
The best way to set up pipeline-level options is through automated configuration generation. The skill configures options like name, outdir, and scheduler based on your analysis goals, ensuring the TOML is valid and ready for the immunopipe pipeline run.
Pipeline configuration routing works by evaluating your data type and directing RNA+TCR/BCR inputs to specific process configuration skills. This generates a detailed TOML file that includes all essential and optional processes required for your combined analysis goals.
No, manual validation is unnecessary. The configuration skill automatically validates the generated TOML file after routing to the appropriate process skills, providing guidance so you can immediately execute the immunopipe pipeline without configuration errors.
pwwangIntegrate TCR/BCR repertoires with scRNA-seq data to enrich Seurat metadata with clonotype information.
swaruplabProcess biological sequences, alignments, and phylogenies with scikit-bio.
guhans6Transform project plans into granular issues within an issue tracker.
anthropicsAutomate nf-core pipeline deployment and execution for omics data analysis.
