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このリポジトリの skills
SkillsMP は BioTender-max/awesome-bio-agent-skills から 236 件の skill を収集しています。skill を開くとソースと詳細を確認できます。
BioTender-max/awesome-bio-agent-skills収集済み skill 236 件中 40 件を表示しています。
Calculates tumor mutational burden from WES/WGS/panel data with Friends of Cancer Research harmonization equations, per-assay calibration (FDA 10/Mb = 7.8 TSO500 = 8.4 OncomineTML), synonymous/indel/germline filtering, hypermutator tiering, blood TMB, and…
原文の言語: 英語
Query UniProt's REST API (post-2022 endpoint at rest.uniprot.org) for protein sequences, annotations, GO terms, cross-references, ID mappings, and proteomes. Use when fetching UniProtKB entries, navigating the JSON schema, choosing between…
原文の言語: 英語
Prioritizes rare-disease variants from trio/quad WES/WGS with de novo (DeNovoGear, Triodenovo), compound-heterozygous phasing (WhatsHap), mosaic VAF tiering, phenotype-driven ranking (Exomiser, Phen2Gene, AMELIE), ClinGen gene-disease validity gating, and…
原文の言語: 英語
Performs structure-based virtual screening using AutoDock Vina, SMINA, GNINA (CNN scoring), and DiffDock-L hybrid workflows with explicit choice rules across rigid vs flexible docking, cross-docking vs self-docking, binding-site detection (P2Rank, fpocket),…
原文の言語: 英語
Build volcano and MA plots from differential-expression / association results with LFC shrinkage, FDR-adjusted thresholds, sensible label placement, and axis-truncation conventions. Covers EnhancedVolcano, ggplot2, matplotlib, and the apeglm/ashr/normal…
原文の言語: 英語
Build whole-genome alignments using Progressive Cactus (Armstrong 2020 reference-free clade-level WGA), Minigraph-Cactus (Hickey 2024 pangenome-aware), LASTZ chain/net (UCSC pipeline), MUMmer4 (Marçais 2018 pairwise), minimap2 -x asm5/10/20 (Li 2018 fast…
原文の言語: 英語
Detect, date, and contextualize whole-genome duplication (WGD / paleopolyploidy) events using wgd v2 (Chen & Zwaenepoel 2024), KsRates (Sensalari 2022 substitution-rate-corrected Ks dating), DupGen_finder (Qiao 2019), MAPS (Li 2018 phylogenomic), POInT…
原文の言語: 英語
Meta-agent that routes bioinformatics requests to specialised sub-skills. Handles file type detection, analysis planning, report generation, and reproducibility export.
原文の言語: 英語
Cell segmentation in fluorescence microscopy images. Supports Cellpose/cpsam (Cellpose 4.0) with additional backends planned. Produces segmentation masks, per-cell morphology metrics (area, diameter, centroid, eccentricity), overlay figures, and a report.md.
原文の言語: 英語
Deterministic CRISPR screen hit ranking from local guide-level count tables
原文の言語: 英語
Summarise pre-computed differential expression results with ranked gene lists, biological themes, and publication-ready interpretation.
原文の言語: 英語
Fetch a region of GWAS summary statistics from the NHGRI-EBI GWAS Catalog harmonised collection via tabix-on-FTP. Use when an agent needs GWAS beta / SE / p-value for every variant in a window for one specific study (GCST accession). Input: accession,…
原文の言語: 英語
Calculate polygenic risk scores from DTC genetic data using the PGS Catalog
原文の言語: 英語
Compute epigenetic age from DNA methylation arrays using PyAging clocks from GEO accessions or local files.
原文の言語: 英語
Wrapper skill for running nf-core/rnaseq bulk RNA-seq preprocessing from FASTQ or BAM inputs with strict preflight, reproducibility outputs, and downstream handoff to ClawBio bulk RNA-seq DE skills.
原文の言語: 英語
Wrapper skill for running nf-core/scrnaseq upstream single-cell RNA-seq preprocessing from FASTQ with strict preflight, reproducibility outputs, and downstream handoff to ClawBio scRNA skills.
原文の言語: 英語
Pharmacogenomic report from DTC genetic data (23andMe/AncestryDNA) — 12 genes, 31 SNPs, 51 drugs
原文の言語: 英語
Compute organ-specific biological age from Olink proteomic data using Goeminne et al. (2025) elastic net aging clocks.
原文の言語: 英語
Browser automation via agent-browser CLI for web navigation, form filling, screenshots, scraping, login flows, and UI testing.
原文の言語: 英語
Critically review, score, compare, and rank one or more AI scientist outputs for biology, bioinformatics, computational life science, or adjacent research tasks. Trigger when the user asks to evaluate notebooks, code, figures, analyses, manuscripts, software,…
原文の言語: 英語
Search arXiv preprints through the official arXiv API and turn arXiv IDs into local Markdown summaries. Use when you need CS, math, physics, or quantitative biology preprints, especially recent submissions that may not yet appear in peer-reviewed literature…
原文の言語: 英語
Create publication-quality matplotlib/seaborn charts with readable axes, tight layout, and curated palettes.
原文の言語: 英語
Functional annotation and taxonomy inference from sequence homology.
原文の言語: 英語
Assemble genomes/metagenomes and produce assembly QC artifacts.
原文の言語: 英語
Perform metagenomic binning with QuickBin, refinement, and QC with completeness/contamination checks.
原文の言語: 英語
Initialize a bioinformatics project scaffold with reproducible environments, schemas, and data cataloging. Use for new projects or repo setup.
原文の言語: 英語
Call genes and annotate basic features for prokaryotes, viruses, and eukaryotes.
原文の言語: 英語
Evaluate scientific rigor, methods, biases, and evidence quality for claims, papers, and study designs.
原文の言語: 英語
Build marker gene alignments and phylogenetic trees.
原文の言語: 英語
Design and scaffold bioinformatics pipelines using Prefect+Dask for local/distributed execution or Nextflow for HPC schedulers.
原文の言語: 英語
Cluster proteins into orthogroups and derive pangenome matrices.
原文の言語: 英語
Ingest, QC, and map reads with reproducible outputs. Use for raw read processing and coverage stats.
原文の言語: 英語
Aggregate results, train ML models, and produce reports with validated references.
原文の言語: 英語
Structure prediction and structure-based annotation.
原文の言語: 英語
Detect, classify, and QC viral contigs.
原文の言語: 英語
Generate reproducible Methods documentation from workflow run artifacts (Nextflow/Snakemake/CWL), including exact commands, versions, parameters, QC gates, and outputs.
原文の言語: 英語
Search bioRxiv preprints through the official bioRxiv API and locally filter titles, abstracts, and authors for keyword queries. Use when you need recent biology preprints, bioRxiv-native metadata, date-range scans, DOI lookups, or author shortlists that may…
原文の言語: 英語
Query the Crossref REST API for DOI validation, title search, citation metadata, and bibliography audits. Use when you need DOI lookup, title-to-DOI matching, or reference metadata cleanup.
原文の言語: 英語
Fetch current API and SDK documentation with the chub CLI. Use when writing or reviewing code against fast-changing APIs, especially when the user asks for the latest or current docs.
原文の言語: 英語
Queries JGI Lakehouse (Dremio) for genomics metadata from GOLD, IMG, Mycocosm, Phytozome. Downloads genome files from JGI filesystem using IMG taxon OIDs and links JGI taxon OIDs to read files through PMO/GOLD identifiers and JAMO. Use when working with JGI…
原文の言語: 英語