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Claude Skills by aipoch
github.com/aipoch605 skills11 installs808 views
- BiopythonA comprehensive toolbox for computational molecular biology; use it when you need programmatic sequence/structure parsing, batch bioinformatics pipelines, or automated NCBI/BLAST workflows.Votes: 0GitHub stars: 1,793
- BioservicesUnified Python access to 40+ bioinformatics web services; use when you need to query multiple databases (e.g., UniProt/KEGG/ChEMBL/Reactome) with one consistent API in a single workflow, especially for cross-database analysis and identifier mapping.Votes: 0GitHub stars: 1,793
- Circos Plot GeneratorGenerate Circos configuration files for circular genomics data visualization. Supports genomic variations (SNPs, CNVs, structural variants), cell-cell communication networks, and custom track configurations for publication-ready circular plots.Votes: 0GitHub stars: 1,793
- Clinical Data CleanerUse when cleaning clinical trial data, preparing data for FDA/EMA submission, standardizing SDTM datasets, handling missing values in clinical studies, detecting outliers in lab results, or converting raw CRF data to CDISC format. Cleans and standardizes clinical trial data fo...Votes: 0GitHub stars: 1,793
- Cnv Caller PlotterDetect copy number variations from whole genome sequencing data and generate publication-quality genome-wide CNV plots. Supports CNV calling, segmentation, and visualization for cancer genomics and rare disease analysis.Votes: 0GitHub stars: 1,793
- CobrapyConstraint-based reconstruction and analysis (COBRA) for metabolic models; use when you need to simulate growth/production, analyze flux ranges, or run knockout and medium studies from SBML/JSON/YAML models.Votes: 0GitHub stars: 1,793
- Code Refactor For ReproducibilityUse when refactoring research code for publication, adding documentation to existing analysis scripts, creating reproducible computational workflows, or preparing code for sharing with collaborators. Transforms research code into publication-ready, reproducible workflows. Adds documentation, implements error handling, creates environment specifications, and ensures computational reproducibility for scientific publications.Votes: 0GitHub stars: 1,793
- Cohort Study Quality Assessment NosEvaluates the quality of cohort studies using the Newcastle-Ottawa Scale (NOS). Use when the user provides a cohort study article or text and needs a quality assessment report.Votes: 0GitHub stars: 1,793
- Crispr Screen AnalyzerProcess CRISPR screening data to identify essential genes and hit candidates. Performs quality control, statistical analysis (RRA), and hit calling for pooled CRISPR screens including viability screens and drug resistance/sensitivity studies.Votes: 0GitHub stars: 1,793
- Data Stats AnalysisPerform statistical tests, hypothesis testing, correlation analysis, and multiple testing corrections using scipy and statsmodels. Works with ANY LLM provider (GPT, Gemini, Claude, etc.).Votes: 0GitHub stars: 1,793
- Data TransformTransform, clean, reshape, and preprocess data using pandas and numpy. Works with ANY LLM provider (GPT, Gemini, Claude, etc.).Votes: 0GitHub stars: 1,793
- DeeptoolsNGS analysis toolkit. Used for BAM to bigWig conversion, quality control (correlation, PCA, fingerprint plots), heatmaps/feature plots (TSS, peaks), suitable for ChIP-seq, RNA-seq, ATAC-seq visualization.Votes: 0GitHub stars: 1,793
- Diagnostic Study Quality Assessment Quadas 2Analyzes clinical diagnostic accuracy studies for bias using the QUADAS-2 tool. Use when Claude needs to assess the quality, risk of bias, or applicability of diagnostic accuracy studies (e.g., \"Assess this paper using QUADAS-2\").Votes: 0GitHub stars: 1,793
- Dnanexus IntegrationDNAnexus cloud genomics platform. Build apps/applets, manage data (upload/download), dxpy Python SDK, run workflows, process FASTQ/BAM/VCF, for developing and executing genomics pipelines.Votes: 0GitHub stars: 1,793
- EpidemiologyPerforms epidemiological analyses including disease modeling (SIR/SEIR), outbreak investigation, risk factor identification, incidence/prevalence estimation, and causal inference from observational data; trigger when users discuss disease spread, public health data, or populat...Votes: 0GitHub stars: 1,793
- EtetoolkitETE (Environment for Tree Exploration) toolkit for phylogenetic and hierarchical tree analysis; use it when you need to parse/manipulate Newick/NHX trees, detect duplication/speciation events, integrate NCBI taxonomy, and render publication-quality figures.Votes: 0GitHub stars: 1,793
- Experimental Data AnalysisStatistical analysis and reporting for experimental datasets; use when you need to interpret experimental results, test significance (t-tests/ANOVA), or generate reproducible reports.Votes: 0GitHub stars: 1,793
- Exploratory Data AnalysisPerform comprehensive exploratory data analysis on scientific data files across 200+ file formats. This skill should be used when analyzing any scientific data file to understand its structure, content, quality, and characteristics. Automatically detects file type and generate...Votes: 0GitHub stars: 1,793
- Facs Gating Viz StyleUse facs gating viz style for data analysis workflows that need structured execution, explicit assumptions, and clear output boundaries.Votes: 0GitHub stars: 1,793
- Fastqc Report InterpreterUse when analyzing FASTQC quality reports from sequencing data, identifying quality issues in NGS datasets, or troubleshooting sequencing problems. Interprets quality metrics and provides actionable recommendations for RNA-seq, DNA-seq, and ChIP-seq data.Votes: 0GitHub stars: 1,793
- FlowioParse Flow Cytometry Standard (FCS) files v2.0–3.1 and extract events/metadata for preprocessing workflows (e.g., when you need NumPy arrays, channel info, or CSV/DataFrame export from cytometry files).Votes: 0GitHub stars: 1,793
- Forest Plot StylerAnalyze data with `forest-plot-styler` using a reproducible workflow, explicit validation, and structured outputs for review-ready interpretation.Votes: 0GitHub stars: 1,793
- Gene Structure MapperUse gene structure mapper for data analysis workflows that need structured execution, explicit assumptions, and clear output boundaries.Votes: 0GitHub stars: 1,793
- GenimlMachine learning toolkit for genomic interval (BED) data; use it when you need to tokenize BED collections and train embeddings for regions/cells/labels, build consensus peak universes, or run similarity search and downstream ML on chromatin accessibility datasets.Votes: 0GitHub stars: 1,793
- GeopandasA Python library for reading, writing, and analyzing geospatial vector data; use it when you need spatial operations (buffer/overlay/join), CRS reprojection, or map visualization on formats like Shapefile/GeoJSON/GeoPackage or PostGIS.Votes: 0GitHub stars: 1,793
- Graphical Abstract WizardGenerate graphical abstract layout recommendations based on paper abstracts.Votes: 0GitHub stars: 1,793
- GtarsA high-performance Rust toolkit (with Python bindings and a CLI) for genomic interval analysis; use it when you need fast overlap queries, coverage track generation, genomic tokenization for ML, reference sequence verification, or fragment processing.Votes: 0GitHub stars: 1,793
- Heatmap BeautifierProfessional beautification tool for gene expression heatmaps, automatically adds clustering trees, color annotation tracks, and intelligently optimizes label layout.Votes: 0GitHub stars: 1,793
- HistolabDigital pathology image processing toolkit for whole slide images (WSI). Supports WSI formats (SVS, TIFF, NDPI), tile-based analysis, and histological image preprocessing workflows.Votes: 0GitHub stars: 1,793
- Lab Budget ForecasterUse lab budget forecaster for data analysis workflows that need structured execution, explicit assumptions, and clear output boundaries.Votes: 0GitHub stars: 1,793
- LamindbThis skill is applicable when using LaminDB. LaminDB is an open-source data framework for biology that makes data queryable, traceable, reproducible, and FAIR-compliant. It is suitable for managing biological datasets (scRNA-seq, spatial transcriptomics, flow cytometry, etc.), tracking computational workflows, curating and validating data with biological ontologies, building data lakes, or ensuring data lineage and reproducibility in biological research. It covers data management, annotation,...Votes: 0GitHub stars: 1,793
- Lipinski Rule FilterFilter compound libraries based on Lipinski's Rule of Five for drug-likeness.Votes: 0GitHub stars: 1,793
- MatchmsProcess, clean, and compare mass spectrometry (MS/MS) spectra with Matchms; use when you need reproducible spectral filtering and similarity scoring for metabolomics workflows.Votes: 0GitHub stars: 1,793
- MatplotlibA low-level plotting library for comprehensive customization. Use when fine-grained control over every plot element is needed, creating new types of charts, or integrating into specific scientific workflows. Can export to PNG/PDF/SVG for publication. For quick statistical charts, use seaborn; for interactive charts, use plotly; for journal-style, publication-ready multi-panel charts, use scientific-visualization.Votes: 0GitHub stars: 1,793
- Mechanism FlowchartGenerates Mermaid flowchart code and visual diagrams for pathophysiological.Votes: 0GitHub stars: 1,793
- Mendelian Randomisation> **Source**: [https://github.com/aipoch/medical-research-skills](https://github.com/aipoch/medical-research-skills) You are **Mendelian Randomisation**, a specialised ClawBio agent for causal inference from GWAS summary statistics. Your role is to run two-sample MR with multiple estimators and a complete sensitivity analysis panel.Votes: 0GitHub stars: 1,793
- Meta Abstract ScreenerScreens research papers based on title/abstract and inclusion criteria, providing a structured Yes/No/Maybe decision. Use when you need to filter literature for meta-analysis or systematic reviews.Votes: 0GitHub stars: 1,793
- Meta AnalysisPerform quantitative meta-analysis with effect size calculation, forest plots, funnel plots, and heterogeneity assessment. Use when: user asks to combine results from multiple studies, calculate pooled effect sizes, assess publication bias, or create forest/funnel plots. NOT f...Votes: 0GitHub stars: 1,793
- Meta Baujat PlotGenerate Baujat plots for heterogeneity analysis. Identify studies that contribute most to the overall meta-analysis results and heterogeneity, helping discover potential outlier studies. Input meta-analysis data CSV, output Baujat plot PNG and contribution data CSV.Votes: 0GitHub stars: 1,793
- Meta Criteria GeneratorGenerates scientifically sound inclusion and exclusion criteria for Meta-Analysis based on a given title or keywords. Use when user wants to design eligibility criteria for a systematic review or meta-analysis.Votes: 0GitHub stars: 1,793
- Meta Feasibility AnalyzerAnalyzes the feasibility of a proposed Meta-analysis topic by searching for existing Meta-analyses and Clinical Trials on PubMed/ClinicalTrials.gov. Use when you need to evaluate if a topic is viable for a new Meta-analysis.Votes: 0GitHub stars: 1,793
- Meta Forest Binary PlotGenerate meta-analysis forest plots for binary classification data. Input is a CSV file containing study names, event counts and sample sizes for experimental and control groups. Output includes forest plot PNG and data table CSV.Votes: 0GitHub stars: 1,793
- Meta Forest Continuous PlotGenerate forest plots for meta-analysis of continuous data. Input a CSV file containing study names, means, standard deviations, and sample sizes for experimental and control groups. Output forest plot PNG and data table CSV.Votes: 0GitHub stars: 1,793
- Meta Forest Model PlotGenerate forest plots for meta-analysis of survival data. Input is a CSV file containing study names, HR and 95% confidence intervals, output forest plot PNG and data table CSV. Supports both R and Python scripts.Votes: 0GitHub stars: 1,793
- Meta Funnel PlotGenerate Meta-analysis funnel plots and perform publication bias testing. Takes CSV file with Meta-analysis data as input, outputs funnel plot PNG, Egger test and Begg test results.Votes: 0GitHub stars: 1,793
- Meta Picos GeneratorGenerates PI(E)COS structure (Population, Intervention, Comparator, Outcomes, Study Design) from Meta-analysis or study titles. Use when the user wants to extract these elements from a title.Votes: 0GitHub stars: 1,793
- Meta Radial PlotGenerate radial plots (Radial Plot/Galbraith Plot) for heterogeneity analysis. Visually assess heterogeneity across studies by displaying the relationship between standardized effect sizes and precision. Input: Meta-analysis data in CSV format; Output: Radial plot PNG and data CSV.Votes: 0GitHub stars: 1,793
- Meta Rob2 PlotDraw ROB2 risk-of-bias plots, including a Traffic Light Plot and a Summary Bar Plot. Input is a CSV file with ROB2 assessments for each study; output are two PNG plot files.Votes: 0GitHub stars: 1,793
- Meta Screening FulltextScreen full-text papers against inclusion/exclusion criteria, with optional PubMed metadata check using PMID. Use when the user needs to evaluate a paper for a meta-analysis.Votes: 0GitHub stars: 1,793
- Meta Sensitivity PlotGenerate leave-one-out sensitivity analysis plots for meta-analysis. Input is a CSV file containing meta-analysis data; outputs are a sensitivity forest plot (PNG) and a sensitivity data table (CSV) showing pooled effect estimates after excluding each study in turn.Votes: 0GitHub stars: 1,793