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Topic: medical

897 skills in this topic.

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
bio-genome-intervals-interval-arithmetic
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-hi-c-analysis-hic-data-io Load, convert, and manipulate Hi-C contact matrices using cooler format. Read .cool/.mcool files, convert from .hic format, access matrix data, and export to different formats. Use when loading or converting Hi-C contact matrices.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-hi-c-analysis-loop-calling Detect chromatin loops and point interactions from Hi-C data using cooltools, chromosight, and HiCCUPS-like methods. Identify CTCF-mediated loops and enhancer-promoter contacts. Use when detecting chromatin loops from Hi-C data.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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
bio-imaging-mass-cytometry-phenotyping Cell type assignment from marker expression in IMC data. Covers manual gating, clustering, and automated classification approaches. Use when assigning cell types to segmented IMC cells based on protein marker expression or when phenotyping cells in multiplexed imaging data.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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
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
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
bio-metabolomics-lipidomics Specialized lipidomics analysis for lipid identification, quantification, and pathway interpretation. Covers LC-MS lipidomics with LipidSearch, MS-DIAL, and LipidMaps annotation. Use when analyzing lipid classes, chain composition, or lipid-specific pathways.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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
bio-metabolomics-normalization-qc Quality control and normalization for metabolomics data. Covers QC-based correction, batch effect removal, and data transformation methods. Use when correcting technical variation in metabolomics data before statistical analysis.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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
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
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
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
bio-pathway-kegg-pathways KEGG pathway and module enrichment analysis using clusterProfiler enrichKEGG and enrichMKEGG. Use when identifying metabolic and signaling pathways over-represented in a gene list. Supports 4000+ organisms via KEGG online database.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-population-genetics-scikit-allel-analysis
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-reporting-quarto-reports
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-restriction-fragment-analysis
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-ribo-seq-translation-efficiency Calculate translation efficiency (TE) as the ratio of ribosome occupancy to mRNA abundance. Use when comparing translational regulation between conditions or identifying genes with altered translation independent of transcription.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-sequence-slicing
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-similarity-searching Performs molecular similarity searches using Tanimoto coefficient on fingerprints via RDKit. Finds structurally similar compounds using ECFP or MACCS keys and clusters molecules by structural similarity using Butina clustering. Use when finding analogs of a query compound or clustering chemical libraries.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-single-cell-preprocessing Quality control, filtering, and normalization for single-cell RNA-seq using Seurat (R) and Scanpy (Python). Use for calculating QC metrics, filtering cells and genes, normalizing counts, identifying highly variable genes, and scaling data. Use when filtering, normalizing, and selecting features in single-cell data.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009