GitHub
bio-hi-c-analysis-compartment-analysis
Detect A/B compartments from Hi-C data using cooltools and eigenvector decomposition. Identify active (A) and inactive (B) chromatin compartments from contact matrices.
☆ 300View skill
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GitHub
bio-copy-number-cnv-visualization
Visualize copy number profiles, segments, and compare across samples. Create publication-quality plots of CNV data from CNVkit, GATK, or other callers. Use when creating genome-wide CNV plots, sample heatmaps,...
☆ 300View skill
GitHub
bio-de-edger-basics
Perform differential expression analysis using edgeR in R/Bioconductor. Use for analyzing RNA-seq count data with the quasi-likelihood F-test framework, creating DGEList objects, normalization, dispersion estim...
☆ 300View skill
GitHub
bio-data-visualization-heatmaps-clustering
Create clustered heatmaps with row/column annotations using ComplexHeatmap, pheatmap, and seaborn for gene expression and omics data visualization. Use when visualizing expression patterns across samples or ide...
☆ 300View skill
GitHub
bio-hi-c-analysis-hic-differential
Compare Hi-C contact matrices between conditions to identify differential chromatin interactions. Compute log2 fold changes, statistical significance, and visualize differential contact maps.
☆ 300View skill
GitHub
bio-de-visualization
Visualize differential expression results using DESeq2/edgeR built-in functions. Covers plotMA, plotDispEsts, plotCounts, plotBCV, sample distance heatmaps, and p-value histograms.
☆ 300View skill
GitHub
bio-spatial-transcriptomics-spatial-visualization
Visualize spatial transcriptomics data using Squidpy and Scanpy. Create tissue plots with gene expression, clusters, and annotations overlaid on histology images.
☆ 300View skill
GitHub
bio-pathway-enrichment-visualization
Visualize enrichment results using enrichplot package functions. Covers dotplot, barplot, cnetplot, emapplot, gseaplot2, ridgeplot, and treeplot for clusterProfiler results.
☆ 300View skill
GitHub
bio-metagenomics-visualization
Visualize metagenomic profiles using R (phyloseq, microbiome) and Python (matplotlib, seaborn). Create stacked bar plots, heatmaps, PCA plots, and diversity analyses. Use when creating publication-quality figur...
☆ 300View skill
GitHub
bio-reporting-rmarkdown-reports
Create reproducible bioinformatics analysis reports with R Markdown including code, results, and visualizations in HTML, PDF, or Word format.
☆ 299View skill
GitHub
bio-proteomics-differential-abundance
Statistical testing for differentially abundant proteins between conditions. Covers limma and MSstats workflows with multiple testing correction. Use when identifying proteins with significant abundance changes...
☆ 299View skill
GitHub
bio-data-visualization-circos-plots
Create circular genome visualizations with Circos and pyCircos. Display multi-track data including ideograms, genes, variants, CNVs, and interaction arcs.
☆ 299View skill
GitHub
bio-de-results
Extract, filter, annotate, and export differential expression results from DESeq2 or edgeR. Use for identifying significant genes, applying multiple testing corrections, adding gene annotations, and preparing r...
☆ 299View skill
GitHub
bio-data-visualization-interactive-visualization
Create interactive HTML plots with plotly and bokeh for exploratory data analysis and web-based sharing of omics visualizations. Use when building zoomable, hoverable plots for data exploration or web dashboard...
☆ 299View skill
GitHub
bio-hi-c-analysis-hic-visualization
Visualize Hi-C contact matrices, TADs, loops, and genomic features using matplotlib, cooltools, and HiCExplorer. Create triangle plots, virtual 4C, and multi-track figures.
☆ 299View skill
GitHub
bio-pathway-go-enrichment
Gene Ontology over-representation analysis using clusterProfiler enrichGO. Tests whether GO terms are enriched in a gene list compared to background. Supports all three ontologies (BP, MF, CC), multiple ID type...
☆ 299View skill
GitHub
bio-workflows-expression-to-pathways
Workflow from differential expression results to functional enrichment analysis. Covers GO, KEGG, Reactome enrichment with clusterProfiler and visualization.
☆ 299View skill
GitHub
bio-chipseq-visualization
Visualize ChIP-seq data using deepTools, Gviz, and ChIPseeker. Create heatmaps, profile plots, and genome browser tracks. Visualize signal around peaks, TSS, or custom regions.
☆ 299View skill
GitHub
data-analysis
High-performance data analysis using Polars - load, transform, aggregate, visualize and export tabular data. Use for CSV/JSON/Parquet processing, statistical analysis, time series, and creating charts.
☆ 293View skill
GitHub
data-analysis
Comprehensive data analysis skill for CSV files using Python and pandas
☆ 287View skill
GitHub
d3js-visualization
Build deterministic, verifiable data visualizations with D3.js (v6). Generate standalone HTML/SVG (and optional PNG) from local data files without external network dependencies. Use when tasks require charts, p...
☆ 283View skill
GitHub
power-flow-data
Power system network data formats and topology. Use when parsing bus, generator, and branch data for power flow analysis.
☆ 283View skill
GitHub
xlsx
Comprehensive spreadsheet creation, editing, and analysis with support for formulas, formatting, data analysis, and visualization. When Claude needs to work with spreadsheets (.xlsx, .xlsm, .csv, .tsv, etc) for...
☆ 283View skill
GitHub
lab-unit-harmonization
Comprehensive clinical laboratory data harmonization for multi-source healthcare analytics. Convert between US conventional and SI units, standardize numeric formats, and clean data quality issues. This skill s...
☆ 283View skill
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