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Topic: clawhub

924 skills in this topic.

bio-alignment-msa-parsing Parse and analyze multiple sequence alignments using Biopython. Extract sequences, identify conserved regions, analyze gaps, work with annotations, and manipulate alignment data for downstream analysis. Use when parsing or manipulating multiple sequence alignments.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-bedgraph-handling
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-causal-genomics-fine-mapping Identify likely causal variants within GWAS loci using SuSiE for sum of single effects regression and FINEMAP for shotgun stochastic search. Computes posterior inclusion probabilities and credible sets to prioritize variants for functional follow-up. Use when narrowing GWAS association signals to candidate causal variants or building credible sets for functional validation.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-causal-genomics-mendelian-randomization Estimate causal effects between exposures and outcomes using genetic variants as instrumental variables with TwoSampleMR. Implements IVW, MR-Egger, weighted median, and MR-PRESSO methods for robust causal inference from GWAS summary statistics. Use when testing whether an exposure causally affects an outcome using genetic instruments.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-causal-genomics-pleiotropy-detection Detect and correct for horizontal pleiotropy in Mendelian randomization analyses using MR-PRESSO for outlier removal, MR-Egger regression for directional pleiotropy, and Steiger filtering for variant directionality. Use when validating MR results, detecting pleiotropic instruments, or running sensitivity analyses for causal inference.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-cfdna-preprocessing Preprocesses cell-free DNA sequencing data including adapter trimming, alignment optimized for short fragments, and UMI-aware duplicate removal using fgbio. Applies cfDNA-specific quality thresholds and fragment length filtering. Use when processing plasma cfDNA sequencing data before downstream analysis.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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
bio-clinical-databases-tumor-mutational-burden Calculate tumor mutational burden from panel or WES data with proper normalization and clinical thresholds. Use when assessing immunotherapy eligibility or characterizing tumor immunogenicity.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-clinical-databases-variant-prioritization Filter and prioritize variants by pathogenicity, population frequency, and clinical evidence for rare disease analysis. Use when identifying candidate disease-causing variants from exome or genome sequencing.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-clip-seq-clip-alignment
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-clip-seq-clip-motif-analysis
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-clip-seq-clip-peak-calling
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-comparative-genomics-ancestral-reconstruction
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-comparative-genomics-positive-selection
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-compressed-files Read and write compressed sequence files (gzip, bzip2, BGZF) using Biopython. Use when working with .gz or .bz2 sequence files. Use BGZF for indexable compressed files.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-crispr-screens-crispresso-editing CRISPResso2 for analyzing CRISPR gene editing outcomes. Quantifies indels, HDR efficiency, and generates comprehensive editing reports. Use when analyzing amplicon sequencing data from CRISPR editing experiments to assess editing efficiency.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-crispr-screens-jacks-analysis JACKS (Joint Analysis of CRISPR/Cas9 Knockout Screens) for modeling sgRNA efficacy and gene essentiality. Use when analyzing multiple CRISPR screens simultaneously or when accounting for variable sgRNA efficiency across experiments.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-epidemiological-genomics-transmission-inference Infer pathogen transmission networks and identify likely transmission pairs using TransPhylo and outbreak reconstruction algorithms. Estimate who-infected-whom from genomic and epidemiological data. Use when investigating outbreak transmission chains or identifying superspreaders.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-epitranscriptomics-m6a-differential
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-flow-cytometry-compensation-transformation Spillover compensation and data transformation for flow cytometry. Covers compensation matrix calculation, application, and biexponential/arcsinh transforms. Use when correcting spectral overlap between fluorophores or transforming data for analysis.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-flow-cytometry-doublet-detection Detect and remove doublets from flow and mass cytometry data. Covers FSC/SSC gating and computational doublet detection methods. Use when filtering out cell aggregates before clustering or quantitative analysis.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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
bio-genome-assembly-short-read-assembly
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
bio-genome-engineering-grna-design Design guide RNAs for CRISPR-Cas9/Cas12a experiments using CRISPRscan and local scoring algorithms. Score guides for on-target activity using Rule Set 2 and Azimuth models. Use when designing sgRNAs for gene knockout, activation, or repression experiments.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009