Topic: openclaw
3,425 skills in this topic.
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bio-flow-cytometry-fcs-handling
Read and manipulate Flow Cytometry Standard (FCS) files. Covers loading data, accessing parameters, and basic data exploration. Use when loading and inspecting flow or mass cytometry data before preprocessing.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-metagenomics-abundance
Species abundance estimation using Bracken with Kraken2 output. Redistributes reads from higher taxonomic levels to species for more accurate estimates. Use when accurate species-level abundances are needed from Kraken2 classification output.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-microbiome-diversity-analysis
Alpha and beta diversity analysis for microbiome data. Calculate within-sample richness, evenness, and between-sample dissimilarity with phyloseq and vegan. Use when comparing community composition across samples or testing for group differences in microbiome structure.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-genome-engineering-off-target-prediction
Predict CRISPR off-target sites using Cas-OFFinder and CFD scoring algorithms. Identify potential unintended cleavage sites genome-wide and assess guide specificity. Use when evaluating guide RNA specificity or selecting guides with minimal off-target risk.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-methylation-methylkit
DNA methylation analysis with methylKit in R. Import Bismark coverage files, filter by coverage, normalize samples, and perform statistical comparisons. Use when analyzing single-base methylation patterns, comparing samples, or preparing data for DMR detection.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-metagenomics-kraken
Taxonomic classification of metagenomic reads using Kraken2. Fast k-mer based classification against RefSeq database. Use when performing initial taxonomic classification of shotgun metagenomic reads before abundance estimation with Bracken.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-metabolomics-metabolite-annotation
Metabolite identification from m/z and retention time. Covers database matching, MS/MS spectral matching, and confidence level assignment. Use when assigning compound identities to detected features in untargeted metabolomics.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-immunoinformatics-mhc-binding-prediction
Predict peptide-MHC class I and II binding affinity using MHCflurry and NetMHCpan neural network models. Identify potential T-cell epitopes from protein sequences. Use when predicting MHC binding for vaccine design or neoantigen identification.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-imaging-mass-cytometry-interactive-annotation
Interactive cell type annotation for IMC data. Covers napari-based annotation, marker-guided labeling, training data generation, and annotation validation. Use when manually annotating cell types for training classifiers or validating automated phenotyping results.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-chipseq-qc
ChIP-seq quality control metrics including FRiP (Fraction of Reads in Peaks), cross-correlation analysis (NSC/RSC), library complexity, and IDR (Irreproducibility Discovery Rate) for replicate concordance. Use to assess experiment quality before downstream analysis. Use when assessing ChIP-seq data quality metrics.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-long-read-sequencing-nanopore-methylation
Calls DNA methylation from Oxford Nanopore sequencing data using signal-level analysis. Use when detecting 5mC or 6mA modifications directly from nanopore reads without bisulfite conversion.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-longread-alignment
Align long reads using minimap2 for Oxford Nanopore and PacBio data. Supports various presets for different read types and applications. Use when aligning ONT or PacBio reads to a reference genome for variant calling, SV detection, or coverage analysis.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-longread-qc
Quality control for long-read sequencing data using NanoPlot, NanoStat, and chopper. Generate QC reports, filter reads by length and quality, and visualize read characteristics. Use when assessing ONT or PacBio run quality or filtering reads before assembly or alignment.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-spatial-transcriptomics-spatial-communication
Analyze cell-cell communication in spatial transcriptomics data using ligand-receptor analysis with Squidpy. Infer intercellular signaling, identify communication pathways, and visualize interaction networks. Use when analyzing cell-cell communication in spatial context.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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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 results for downstream analysis. Use when filtering and exporting DE analysis results.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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geniml
This skill should be used when working with genomic interval data (BED files) for machine learning tasks. Use for training region embeddings (Region2Vec, BEDspace), single-cell ATAC-seq analysis (scEmbed), building consensus peaks (universes), or any ML-based analysis of genomic regions. Applies to BED file collections, scATAC-seq data, chromatin accessibility datasets, and region-based genomic feature learning.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-crispr-screens-mageck-analysis
MAGeCK (Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout) for pooled CRISPR screen analysis. Covers count normalization, gene ranking, and pathway analysis. Use when identifying essential genes, drug targets, or resistance mechanisms from dropout or enrichment screens.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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organoid-drug-response-agent
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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tooluniverse-systems-biology
Comprehensive systems biology and pathway analysis using multiple pathway databases (Reactome, KEGG, WikiPathways, Pathway Commons, BioModels). Performs pathway enrichment, protein-pathway mapping, keyword searches, and systems-level analysis. Use when analyzing gene sets, exploring biological pathways, or investigating systems-level biology.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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test-driven-development
Use when implementing any feature or bugfix, before writing implementation code
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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brainstorming
You MUST use this before any creative work - creating features, building components, adding functionality, or modifying behavior. Explores user intent, requirements and design before implementation.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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pubmed-database
Direct REST API access to PubMed. Advanced Boolean/MeSH queries, E-utilities API, batch processing, citation management. For Python workflows, prefer biopython (Bio.Entrez). Use this for direct HTTP/REST work or custom API implementations.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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tooluniverse-binder-discovery
Discover novel small molecule binders for protein targets using structure-based and ligand-based approaches. Creates actionable reports with candidate compounds, ADMET profiles, and synthesis feasibility. Use when users ask to find small molecules for a target, identify novel binders, perform virtual screening, or need hit-to-lead compound identification.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-liquid-biopsy-pipeline
FreedomIntelligence/OpenClaw-Medical-Skills 2,009