Use when you have extracted quantitative genomic features (e.g., insulation scores, boundary annotations) as a pandas DataFrame with bin coordinates and boolean or numeric…
Use when after computing per-bin coverage depth using cooltools.coverage() on a loaded cooler object, when you need to (1) share the coverage track with non-Python tools, (2)…
Use when you have aligned ChIP-Seq reads (in BED or BEDPE format) and need to convert them into quantitative genome-wide signal tracks (coverage, p-value, or q-value scores) for…
Use when you have generated or received bedGraph files from paired-end sequencing (via bedtools genomecov or similar) and need to verify they conform to UCSC bedGraph format…
Genomic interval ops on BED/BAM/GFF/VCF. Find overlaps, merge intervals, compute coverage, extract FASTA, find nearest features.
Build a tiered classroom behavior intervention plan (BIP) for a K-12 student, grounded in the function of the behavior.
Plaited behavioral programming patterns for event-driven coordination and symbolic reasoning. Use when implementing behavioral programs with behavioral()/useBehavioral, designing…
Behavioral game theory foundations covering how real humans deviate from Nash equilibrium. Reference when analyzing level-k thinking, quantal response equilibrium, social…
Biological foundations of behavior and mental processes. Covers brain structure and function (cerebral cortex, limbic system, brainstem, cerebellum, lateralization),…
Benchling R&D platform integration. Access registry (DNA, proteins), inventory, ELN entries, workflows via API, build Benchling Apps, query Data Warehouse, for lab data m — from…
Score deep research agents on benchmark tasks using factual verification, report-quality scoring, and process evaluation before model or workflow changes ship.
Write benchmarks that do not lie, controlling warmup, isolation, and statistics so the number reflects the code and not the environment.
Audit an ML benchmark for data leakage with karyon — measure how much a reported accuracy is inflated by train/test contamination.
[METHODOLOGY] Industry benchmark research — reverse-engineer how the fastest-growing companies in a given industry actually scaled (source harvest → company synthesis →…
Audit government benefits and entitlement systems for fraud prevention, detection, and recovery capabilities.
Query the KBase BERDL (BER Data Lakehouse) databases. Use when the user asks to explore pangenome data, query species information, get genome statistics, analyze gene clusters,…
Get started with the BERIL Research Observatory. Use when a user is new, wants orientation, or asks what they can do.
Use this agent when you need to research external best practices, documentation, and examples for any technology or development practice.
Optimal posting time analysis — research platform-specific engagement patterns for the user's niche and audience, recommend best times to post on note, X, and Instagram.
Guides enabling beta or experimental Grok features safely. Use for: beta feature, early access, unlock experimental, enable beta.
Bearbeitet Berliner Arbeitsschutzkontrollen, Arbeitszeit, Gefährdungsbeurteilung und konkrete Schichtorganisation.
Prüft Berliner Betriebsräume, Nutzungsänderungen, Außengastronomie und Sondernutzung. Erstellt die konkrete Bau- oder Straßenanfrage und trennt Mietrecht, Bestandsunterlagen und…
🧠 Classify an incoming task by its shape (decision, diagnosis, research, creative, communication, learning, negotiation) and its stakes, then select which skills to deploy at what…
Designer agent. Takes a product request — a PRD, an interview, research findings, or all three — and turns it into a working UI built on the Recursica design system, delivered as…
How to prevent and detect apocryphal AI quotations, fabricated book titles, and hallucinated academic citations before publishing.
Use when you have assembled genome sequences (contigs or scaffolds in FASTA format) and want to identify putative BGCs and their precursor peptides before constructing a RiPP…
Use when you have computed raw strain correlation scores and IOKR scores for the same set of GCF–MF (gene cluster family–molecular feature) pairs, and you want to compare or…
Use when you have: (1) a trained IOKR model mapping from spectrum kernels to molecular fingerprints, (2) MS2 spectra from your sample, (3) a set of candidate BGCs with known or…
Search scientific papers and retrieve structured experimental data extracted from full-text studies via the BGPT MCP server.
Search scientific papers and retrieve structured experimental data extracted from full-text studies via the BGPT MCP server.
Search scientific papers and retrieve structured experimental data extracted from full-text studies via the BGPT MCP server.
Search scientific papers and retrieve structured experimental data extracted from full-text studies via the BGPT MCP server.
Evidence-based medical knowledge and research mentor grounded in the Bian Que tradition. Covers clinical reasoning, diagnostic thinking (望闻问切), pharmacology, pathology,…
Use before any research activity or significant decision. Reviews cognitive biases relevant to the current stage. — from haabe/mycelium
Use before any research activity or significant decision. Reviews cognitive biases relevant to the current stage. — from majiayu000/claude-skill-registry
Use when after computeDeviations has generated a SummarizedExperiment object with z-score assays reflecting bias-corrected deviations of observed vs.
Evaluates code generation models across HumanEval, MBPP, MultiPL-E, and 15+ benchmarks with pass@k metrics.
Research a macro investment theme using Bigdata.com data — scope and sub-themes, investment implications, sector impact, named beneficiaries and vulnerable losers with tearsheet…
Create and read bigWig browser tracks for visualizing continuous genomic data. Convert bedGraph to bigWig, extract signal values, and generate coverage tracks using UCSC — from…
英文論文的雙欄對照精讀工具。把 PDF 轉成逐段資料檔，由你逐段翻成貼切通順的學術中文，並用五色預先標出核心論點／創新點／方法／限制／可引用金句，再用一個可重複使用的離線 HTML 閱讀器左右對照閱讀；使用者可自己再畫螢光筆，標記存在瀏覽器可持久保存，並一鍵匯出成 Markdown…
Use when you have executed a binary classifier (such as BitterPredict.m) on a set of molecules with chemical structure descriptors and need to translate the raw predictions into a…
Use when you have a pre-trained TCN spectrum encoder, annotated MS/MS spectra paired with ground-truth molecular formulas, and you want to train only the formula ranking and…
Use when when setting up a bioinformatics pipeline (particularly Hi-C data processing) that depends on multiple external binaries with version constraints, and you need to…
Use when you need to run a binary, trace execution, or observe runtime behavior. Runtime analysis via QEMU emulation, GDB debugging, and Frida hooking - syscall tracing ( — from…
Use when analyzing binary structure, disassembling code, or decompiling functions. Deep static analysis via radare2 (r2) and Ghidra headless - function enumeration, cross — from…
Use when ready to document findings, generate a report, or summarize binary analysis results. Compiles analysis findings into structured reports - correlates facts from t — from…
Use when reverse engineering tools are missing, not working, or need configuration. Installation guides for radare2 (r2), Ghidra, GDB, QEMU, Frida, binutils, and cross-co — from…
Use when first encountering an unknown binary, ELF file, executable, or firmware blob. Fast fingerprinting via rabin2 - architecture detection (ARM, x86, MIPS), ABI ident — from…
Guidance for SPR and BLI binding characterization experiments. Use when: (1) Planning binding kinetics experiments, (2) Troubleshooting poor/no binding signal, (3) Interpreting…
Calculate alignment statistics including sequence identity, conservation scores, substitution matrices, and similarity metrics.
Calculate alignment statistics including sequence identity, conservation scores, substitution matrices, and similarity metrics.
Treats a ctDNA assay as a molecule-counting experiment at the Poisson edge and builds its analytical-validation case the measurement-science way.
Generate alignment statistics using samtools flagstat, stats, depth, coverage, and mosdepth. Use when assessing alignment quality, calculating coverage, or generating QC reports.
Run remote BLAST searches against NCBI servers using Biopython Bio.Blast.NCBIWWW. Use when identifying unknown sequences, finding homologs, picking the correct BLAST program…
Test whether two or more traits share a causal variant at a locus using Bayesian colocalization (coloc.abf, coloc.susie, HyPrColoc, moloc, eCAVIAR, SMR/HEIDI, PWCoCo, SharePro).
Estimate bivariate genetic correlation (rg) between traits from GWAS summary statistics or individual-level genotypes using cross-trait LDSC, HDL, LAVA, rho-HESS, GREML-bivariate,…
Fits structural equation models to GWAS summary statistics using GenomicSEM (Grotzinger 2019), including common-factor models, confirmatory factor models, ESEM, common-fa — from…
Estimate SNP heritability and partition it across functional annotations, cell types, and loci from GWAS summary statistics or individual-level genotypes.
Decompose genetic effects into direct and indirect paths through mediating variables using the mediation R package.
Decompose total effects into direct and indirect paths through mediators using mediation, CMAverse 4-way, HIMA/HIMA2 high-dimensional, BAMA, two-step / MVMR mediation, or…