175 skills · sorted by relevance
Plan study sample sizes, estimate statistical power—the chance of detecting an assumed effect—and find the smallest detectable effect. Supports standard tests and simulations for complex designs, with sensitivity analyses and sample size justifications.
Analyze gene-expression differences in bulk RNA-seq data using PyDESeq2. Validate count tables and experimental designs, test explicit comparisons, adjust for multiple testing, shrink effect estimates, and export statistical results with volcano and MA plots.
Prepare bulk RNA-seq sequencing files or quantification outputs for gene-level comparisons. Check sample information and data quality, configure processing workflows, and assemble validated count tables and metadata for downstream differential expression analysis with PyDESeq2.
Process next-generation sequencing data with deepTools: convert alignment files into coverage tracks, normalize signals, compare samples, and check quality. Create heatmaps and profiles around genes or peak regions for ChIP-seq, RNA-seq, and ATAC-seq experiments.
Plan experiments before collecting data. Helps choose study designs, randomly assign subjects or samples, organize treatment combinations, and generate reproducible schedules while checking for confounding and repeated measurements incorrectly counted as independent samples.
Check research claims cited in books, articles, or conversations by tracing the original paper, methods, underlying data, and independent replication. Save a sourced assessment explaining whether the claim holds up and what remains uncertain.
Generate images from text or reference images using multiple image services. Choose aspect ratios, sizes, and quality settings, or generate a collection of images in batches from saved prompt files.
Organize ATAC-seq, ChIP-seq, CUT&RUN, or CUT&Tag inputs and route them to suitable analysis workflows. Covers initial quality checks and preparation for finding peaks, genomic regions with concentrated signal, and comparing them across samples.
Plan or run bulk RNA-seq analysis to find genes whose expression differs between conditions. Check sample replication, study design, batch effects, and data quality, then produce comparison tables, diagnostic plots, and ranked gene lists.
Explore how a website provides data or handles actions, then turn verified methods into a reusable Skill package with SKILL.md and Python scripts. The workflow includes testing, installation, and execution when requested.
Search Google Maps by business type and location, collect business details, then visit listed websites to find public emails, phone numbers, and social profiles. Merge the results into a contact dataset for local business research and prospect lists.
Replicate the 7 programmatic SEO plays that took Zapier, Clay, Composio, Gamma, Mintlify, HeyGen and HubSpot to
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Build and verify replication packages — routes to reproducibility-auditor agent
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Thoroughly verify all code, tables, figures, modeling decisions, and quantitative claims in an academic paper against its source R scripts and output files. Use this skill whenever you need to audit, replicate, or verify an academic research paper - including cross-checking LaTeX tables against R output, validating econometric modeling choices, ensuring sample sizes are consistent, building a verification manifest, and running automated replication tests. Trigger this skill for any mention of: paper verification, replication check, table audit, code-paper consistency, reproducing results, verifying estimates, checking coefficients, or any variant of "does the paper match the code."
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Classical end-to-end empirical analysis workflow in the traditional Python econometric stack — pandas + numpy + scipy + statsmodels + linearmodels + pyfixest + rdrobust + econml + causalml + matplotlib/seaborn. **Defaults to economics empirical-paper style** (AER / QJE / AEJ) — every run produces a publication-ready output set with a multi-column regression table (M1→M6 progressive controls/FE) as the centerpiece, plus Table 1 (descriptives), mechanism / heterogeneity / robustness tables, and event-study + coefficient + trend figures. Covers the full 8-step pipeline an applied economist or quantitative social scientist runs on every paper — (1) data cleaning, (2) variable construction & transformation, (3) descriptive statistics & Table 1, (4) statistical diagnostic tests, (5) baseline empirical modeling, (6) robustness battery, (7) further analysis (mechanism, heterogeneity, mediation, moderation), (8) publication-ready tables & figures. **Also covers two parallel domain modes that share the same 8-step scaffolding** — **Mode A — Epidemiology / public health** (target-trial emulation via `zepid` / hand-rolled `pandas`, IPTW + g-formula + TMLE doubly-robust triplet via `zepid` / `econml` / `lifelines`, Mendelian randomization via `pymr` / `mrtool` (or `rpy2` → `MendelianRandomization`/`TwoSampleMR`), KM / AFT / Cox survival via `lifelines`, E-value sensitivity, principal stratification — STROBE / TRIPOD reporting), and **Mode B — ML causal inference** (DML via `econml.dml` / `doubleml`, S/T/X/R/DR meta-learners via `econml.metalearners` / `causalml`, causal forest via `econml.grf` / `causalml`, Dragonnet / TARNet / CEVAE neural causal via `causalml`, BCF via `pymc-bart` / `bcf-py`, matrix completion, CATE distribution + policy tree via `econml.policy` / `policytree-py`, off-policy evaluation, conformal causal via `mapie`, fairness audit via `fairlearn`, DAG learning via `causal-learn` / `cdt` / LLM-assisted). Prescribes which library to reach for at each step, shows the canonical code, and links to deeper `references/` files for variant-specific patterns. Use when the user asks for a **complete empirical analysis** in Python, wants to replicate an applied-economics paper from scratch, needs a reproducible workflow that is NOT opinionated on any single vertical package (contrast with StatsPAI), wants explicit control over every estimator and diagnostic, or asks "how do I write a full empirical pipeline in Python?". Also triggers when the user names a specific classical step in isolation — "winsorize at 1/99%", "run Breusch-Pagan", "build a Table 1 balance table", "do a placebo test", "event study plot", "mediation analysis" — and wants it wired into the broader pipeline. Mode A triggers on "target trial emulation", "IPTW", "TMLE", "Mendelian randomization", "STROBE", "公共健康", "流行病学". Mode B triggers on "DML", "double machine learning", "causal forest", "meta-learner", "Dragonnet", "BCF", "policy tree", "conformal causal", "fairness audit", "因果机器学习".
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Sample-size and statistical power calculations for planning studies. Use whenever someone asks "how many subjects/samples/replicates do I need", wants an a priori power analysis, a minimum detectable effect (MDE), a power curve, or needs to justify a sample size for a grant, IRB protocol, or pre-registration. Covers closed-form power for t-tests, ANOVA, proportions, correlations, chi-square, and regression, plus simulation-based (Monte Carlo) power for designs with no formula — logistic/Poisson regression, mixed models, cluster-randomized trials, survival, and interactions. Use this skill even when the request only mentions an effect size, alpha, or "80% power" without saying "power analysis" explicitly. For laying out the study (randomization, blocking, factorial/DOE, crossover, sequential designs) use experimental-design; for analyzing data already collected and reporting it use statistical-analysis.
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Quality control and assessment for proteomics data. Use when evaluating proteomics data quality before downstream analysis. Covers sample metrics, missing value patterns, replicate correlation, batch effects, and intensity distributions.
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Quality control for pooled CRISPR screens. Covers library representation, read distribution, replicate correlation, and essential gene recovery. Use when assessing screen quality before hit calling or diagnosing poor screen performance.
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Batch effect correction for CRISPR screens. Covers normalization across batches, technical replicate handling, and batch-aware analysis. Use when combining screens from multiple batches or correcting systematic technical variation.
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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.
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Differential binding analysis using DiffBind. Compare ChIP-seq peaks between conditions with statistical rigor. Requires replicate samples. Outputs differentially bound regions with fold changes and p-values. Use when comparing ChIP-seq binding between conditions.
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Selects, investigates, and compares AWS object, file, and block storage services, and answers cost, performance, configuration, security, and troubleshooting questions about storage services. Applies when a user asks where to store or archive data based on their usage patterns; which storage service to choose or how two compare; how to migrate data from on-premises or between AWS services; how to protect, replicate, or recover data; how to optimize storage costs; where to deploy shared NFS, SMB, or POSIX file systems; where to store vector embeddings or tabular data; what storage backs enterprise file shares, self-managed databases on EC2, VMware, or stateful containers; or asks what an AWS storage service can do or how it works. Relevant for storage needs for workloads such as AI/ML, analytics, EDA, HPC, media, genomics, or financial trading. Not applicable for SQL query engines (Athena, Spark, Redshift, EMR), ETL (Glue), streaming (Kafka, MSK, Kinesis), or managed database services (RDS, Aurora, DynamoDB).
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Build networked games with Godot 4.7 high-level multiplayer: set up an ENetMultiplayerPeer server/client, define RPCs with the @rpc annotation (call via rpc()/rpc_id()), set per-node multiplayer authority, and replicate state with MultiplayerSpawner and MultiplayerSynchronizer. Use when adding multiplayer/networking to a Godot project, writing @rpc functions, or syncing player/world state across peers.
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Use when the user asks for Superloopy clone or asks to clone, rebuild, reverse-engineer, replicate, or copy a website or page into a Superloopy-governed implementation. Triggers on "loopy clone", target URLs plus requests such as "clone this site", "rebuild this page", "make a copy of this website", "pixel-perfect clone", or "AI website clone". Requires browser automation and records component specs, assets, implementation, build output, and visual QA as Superloopy evidence.
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