Claude Skills by zongtingwei

Workflow for multiplexed imaging or IMC segmentation, phenotyping, and spatial summarization.

Workflow for untargeted or targeted metabolomics including preprocessing, normalization, annotation, statistics, and pathway mapping.

Mass spectrometry proteomics QC, quantification, comparative analysis, and export for DDA, DIA, and protein-level result tables.

Structure retrieval, confidence-aware AlphaFold DB usage, coordinate download, PAE and pLDDT interpretation, and structure-guided biological annotation.

Automated and marker-guided single-cell cell type annotation using CellTypist, marker review, reference transfer, and confidence-aware label curation.

Workflow for ligand-receptor communication inference in single-cell or spatial data with sender-receiver summaries and cautious interpretation.

Workflow for paired or integrated single-cell RNA and ATAC analysis with multimodal latent spaces and regulatory interpretation.

Standard scRNA-seq preprocessing and clustering with Scanpy. Use for QC, normalization, HVG selection, PCA, neighbor graph construction, UMAP, Leiden clustering, and export of an analysis-ready AnnData object.

Workflow for spatial transcriptomics preprocessing, domain detection, deconvolution, neighborhood analysis, and publication-ready maps.

Workflow for pseudotime, lineage branching, and state-transition analysis in single-cell data.

Workflow for event-level and isoform-level splicing analysis with sashimi-ready outputs and splice QC.

Python-first workflow for bulk RNA-seq expression intake, normalization, sample QC, and downstream-ready matrices.

Bulk transcriptomics differential expression with count-aware modeling, design validation, contrast handling, thresholded exports, and publication-ready DE figures.

Workflow for ribosome profiling, P-site aware preprocessing, periodicity checks, ORF detection, and translation efficiency analysis.

Workflow for gene and transcript quantification from RNA-seq reads using alignment-based or alignment-free tools.

Workflow for small RNA and miRNA preprocessing, quantification, differential analysis, and target-oriented interpretation.