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O SkillsMP coletou 236 skills de BioTender-max/awesome-bio-agent-skills. Abra uma skill para revisar a origem e os detalhes.
BioTender-max/awesome-bio-agent-skillsMostrando 40 de 236 skills coletadas.
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…
Idioma do texto original: inglês
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…
Idioma do texto original: inglês
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…
Idioma do texto original: inglês
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),…
Idioma do texto original: inglês
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…
Idioma do texto original: inglês
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…
Idioma do texto original: inglês
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…
Idioma do texto original: inglês
Meta-agent that routes bioinformatics requests to specialised sub-skills. Handles file type detection, analysis planning, report generation, and reproducibility export.
Idioma do texto original: inglês
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.
Idioma do texto original: inglês
Deterministic CRISPR screen hit ranking from local guide-level count tables
Idioma do texto original: inglês
Summarise pre-computed differential expression results with ranked gene lists, biological themes, and publication-ready interpretation.
Idioma do texto original: inglês
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,…
Idioma do texto original: inglês
Calculate polygenic risk scores from DTC genetic data using the PGS Catalog
Idioma do texto original: inglês
Compute epigenetic age from DNA methylation arrays using PyAging clocks from GEO accessions or local files.
Idioma do texto original: inglês
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.
Idioma do texto original: inglês
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.
Idioma do texto original: inglês
Pharmacogenomic report from DTC genetic data (23andMe/AncestryDNA) — 12 genes, 31 SNPs, 51 drugs
Idioma do texto original: inglês
Compute organ-specific biological age from Olink proteomic data using Goeminne et al. (2025) elastic net aging clocks.
Idioma do texto original: inglês
Browser automation via agent-browser CLI for web navigation, form filling, screenshots, scraping, login flows, and UI testing.
Idioma do texto original: inglês
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,…
Idioma do texto original: inglês
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…
Idioma do texto original: inglês
Create publication-quality matplotlib/seaborn charts with readable axes, tight layout, and curated palettes.
Idioma do texto original: inglês
Functional annotation and taxonomy inference from sequence homology.
Idioma do texto original: inglês
Assemble genomes/metagenomes and produce assembly QC artifacts.
Idioma do texto original: inglês
Perform metagenomic binning with QuickBin, refinement, and QC with completeness/contamination checks.
Idioma do texto original: inglês
Initialize a bioinformatics project scaffold with reproducible environments, schemas, and data cataloging. Use for new projects or repo setup.
Idioma do texto original: inglês
Call genes and annotate basic features for prokaryotes, viruses, and eukaryotes.
Idioma do texto original: inglês
Evaluate scientific rigor, methods, biases, and evidence quality for claims, papers, and study designs.
Idioma do texto original: inglês
Build marker gene alignments and phylogenetic trees.
Idioma do texto original: inglês
Design and scaffold bioinformatics pipelines using Prefect+Dask for local/distributed execution or Nextflow for HPC schedulers.
Idioma do texto original: inglês
Cluster proteins into orthogroups and derive pangenome matrices.
Idioma do texto original: inglês
Ingest, QC, and map reads with reproducible outputs. Use for raw read processing and coverage stats.
Idioma do texto original: inglês
Aggregate results, train ML models, and produce reports with validated references.
Idioma do texto original: inglês
Structure prediction and structure-based annotation.
Idioma do texto original: inglês
Detect, classify, and QC viral contigs.
Idioma do texto original: inglês
Generate reproducible Methods documentation from workflow run artifacts (Nextflow/Snakemake/CWL), including exact commands, versions, parameters, QC gates, and outputs.
Idioma do texto original: inglês
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…
Idioma do texto original: inglês
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.
Idioma do texto original: inglês
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.
Idioma do texto original: inglês
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…
Idioma do texto original: inglês