Analyze Single-Cell RNA-Seq
curated by SkillMD · plugin · 9 skills
Analyze single-cell RNA-seq data using Scanpy, including quality control, normalization, clustering, marker gene identification, and visualization.
Install the whole plugin (CLI)
npx skillmds add antigravity/scanpy
npx skillmds add antigravity/biopython
npx skillmds add antigravity/seaborn
npx skillmds add majiayu000/rna
npx skillmds add majiayu000/universal-single-cell-annotator
npx skillmds add lingxling/scanpy
npx skillmds add nimoqup046-collab/scanpy
npx skillmds add jorcan/scanpy
npx skillmds add phoroth/scanpySkills in this plugin
- ▌ scanpy · antigravityAnalyze single-cell RNA-seq data using Scanpy, including quality control, normalization, clustering, marker gene identification, and visualization.
- ▌ biopython · antigravityProvides Python tools for biological computation, including sequence manipulation, file I/O, database access, structural bioinformatics, and phylogenetics.
- ▌ seaborn · antigravityCreate publication-quality statistical graphics from tabular datasets with minimal code, supporting multivariate analysis, statistical estimation, and complex multi-panel figures.
- ▌ rna · majiayu000 bundleAnnotates single-cell RNA-seq data by scoring marker genes, transferring labels with CellTypist, or reasoning over marker lists with an LLM.
- ▌ universal-single-cell-annotator · majiayu000 bundleAnnotates single-cell RNA-seq data by scoring marker genes, transferring labels with CellTypist, or reasoning over cluster markers with an LLM.
- ▌ scanpy · lingxling bundleRuns standard single-cell RNA-seq analysis with Scanpy, covering QC, normalization, dimensionality reduction, clustering, marker identification, visualization, and conversion of R single-cell formats to h5ad.
- ▌ scanpy · nimoqup046-collabAnalyze single-cell RNA-seq data with Scanpy, covering quality control, normalization, clustering, marker gene identification, visualization, and trajectory analysis.
- ▌ scanpy · jorcan bundleAnalyze single-cell RNA-seq data with Scanpy, covering quality control, normalization, dimensionality reduction, clustering, marker gene identification, and visualization.
- ▌ scanpy · phorothAnalyze single-cell RNA-seq data with Scanpy, covering quality control, normalization, clustering, marker gene identification, visualization, and trajectory analysis.