Best reproducible research skills, page 2

Diagnose the model-establishment, solution, results, validation and sensitivity-analysis parts of a HUAWEI Cup paper, including reproducibility and red-line risks.

xieyouxixi/hwb-math-modeling-skills

Lays out a systematic literature review method: PICO-based search strategy, inclusion criteria, PRISMA screening, quality assessment tools and synthesis approaches.

aiming-lab/AutoResearchClaw

Operator toolkit for nf-core/pacsomatic matched tumor-normal workflows from BAM inputs.

BioTender-max/awesome-bio-agent-skills

Turns papers, repositories, logs or notes into an Agent-Native Research Artifact with claims, concepts, configs, an exploration graph and grounded evidence.

Orchestra-Research/AI-Research-SKILLs

Builds, registers, debugs, and operates bioinformatics workflows on Latch using the Python SDK, CLI, Latch Data and Registry, Nextflow, Snakemake, programmatic execution, and Latch MCP.

K-Dense-AI/scientific-agent-skills

Prepares and launches nf-core/pacsomatic matched tumor-normal PacBio HiFi genomics workflows from unaligned BAM inputs.

K-Dense-AI/scientific-agent-skills

Queries a pinned Precision Medicine Knowledge Graph (PrimeKG) CSV for typed gene, drug, disease, and phenotype nodes, direct associations, disease context, and one- or two-hop paths.

K-Dense-AI/scientific-agent-skills

A skill your agent uses when starting analysis work that needs isolation, or before executing a pre-registered plan - ensures an isolated, reproducible workspace with pinned environment, fixed…

K-Dense-AI/science-superpowers

Builds the code for a frozen research experiment test-first, with leakage controls, seed handling and saved evidence so results can be rerun and audited.

Light0305/Light-skills

Provider-independent production workflow for agents assembling, auditing, executing, and handing off ComfyUI node-graph workflows for image, video, upscale, inpaint, conditioning, and batch media…

calesthio/generative-media-skills

Research computing toolkit for optoelectronic information science and engineering, MATLAB/Octave, Python scientific analysis, signal processing, image processing, statistics, simulation…

zLanqing/codex-claude-academic-skills

Builds and operates reproducible genomics workloads on DNAnexus with the dx CLI, dxpy, apps/applets, native workflows, dxCompiler, and Nextflow.

K-Dense-AI/scientific-agent-skills

Builds, runs, and debugs Nextflow DSL2 pipelines and nf-core workflows.

K-Dense-AI/scientific-agent-skills

Check CCF venue rules and submission packages: template, pages, anonymity, PDF build, metadata, and reproducibility.

mikubaka88/CCFA-Skills

A skill your agent uses when the user wants to prepare code for open-source release, create reproducible research artifacts, or structure a repository for publication.

fcakyon/phd-skills

Export any bioinformatics analysis as a reproducible bundle with Conda environment, Singularity container definition, and Nextflow pipeline.

ClawBio/ClawBio

Plans the ablation studies a paper needs after main results support its claim: Codex designs them like a reviewer, Claude Code checks feasibility and runs them.

wanshuiyin/Auto-claude-code-research-in-sleep

Act as Reviewer 1 and Reviewer 2 for a meta-analysis manuscript, checking rigor, reproducibility, and reporting compliance.

htlin222/meta-pipe

Audit/package computational replay with manifests, environments, provenance and evidence levels.

huang-sir1/radiology-skills

Search PubMed and bioRxiv for bioinformatics literature, synthesise results into a structured report, and build a citation graph — all locally, with a reproducibility bundle.

ClawBio/ClawBio

Assemble a submission-ready replication package to the AEA Data and Code Availability Standard (DCAS) / openICPSR / Social Science Reproduction Platform expectations — standard replication README…

pedrohcgs/claude-code-my-workflow

Light 科研主线第 5 步·研究方案与实验设计：把 idea-critique 放行的 idea 与 data feasibility 拆成能真执行、能写进论文、 能复现的 question/estimand、实验矩阵与预注册包。何时用：idea 已通过审查要落地 / 要设计实验·消融·对比·敏感性· 泛化·鲁棒性 / 写研究方案 PROJECTPLAN / 锁 primary…

Light0305/Light-skills

Paper reviewer that evaluates machine learning research projects following official ICML reviewer guidelines.

sundial-org/skills

A skill your agent uses when a Guochuang project needs technical novelty, mechanism, baseline, comparison, reproducibility or validation claims examined.

leewayworks/guochuang-gps

Run the R code review protocol on R scripts. An agent skill from maxwell2732/paper-replicate-agent-demo.

maxwell2732/paper-replicate-agent-demo

Break down full ARR (ACL Rolling Review) reviewer responses into structured rebuttal units.

runtsang/RebuttalStudio

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.

ClawBio/ClawBio

Record and verify provenance manifests for weather-data inputs and derived artifacts, including object identity, selections, software versions, transformations, and hashes.

sickn33/agentic-awesome-skills

Summarizes Google Cloud Data Lineage graphs to help users debug data quality issues and understand data provenance for BQ/GCS.

google/skills

Evidence-first LAMMPS molecular-dynamics workflow for input decks, potentials, minimization, equilibration, deformation, thermo logs, trajectories, restart/data files, stress-strain extraction, and…

Cai-aa/CAE-Agent-Hub

Design/audit imaging truth, readers, ROI geometry, reproducibility and label noise; not model training.

huang-sir1/radiology-skills

A skill your agent uses when downloading repositories, preparing datasets, checking licenses, creating environments, running smoke tests, or preparing reproducible research code.

BingHanOfUESTC/open_agent_team

Queries myvariant.info BioThings aggregator for ClinVar, gnomAD, dbSNP, dbNSFP, COSMIC, CADD, and CIViC annotations in batched, version-tracked requests.

GPTomics/bioSkills

Query the Ensembl REST API for gene/transcript/protein lookup, sequence retrieval, comparative genomics (Compara), variant effect prediction (VEP), regulatory features, and cross-species…

GPTomics/bioSkills

Detects aberrant splicing in single rare-disease patients vs a control panel using FRASER 2.0 (Bioconductor; Beta-binomial autoencoder on Intron Jaccard Index, default delta cutoff 0.1, q…

GPTomics/bioSkills

Triage a newly filed GitHub issue in this repository by analyzing the report, inspecting relevant code, estimating reproducibility, suggesting the likely root cause, and returning structured triage…

warpdotdev/oz-for-oss

Enforce the replication-protocol.md rule by cross-checking numeric claims in a manuscript against the actual R / Stata / Python outputs.

pedrohcgs/claude-code-my-workflow

Comprehensive manuscript review with three modes: single-pass (default), --adversarial critic-fixer loop, and --peer [journal] simulated peer-review pipeline (editor + 2 dispositioned referees +…

pedrohcgs/claude-code-my-workflow

Transparent, rigorous research with full methodology — not a black-box API wrapper.

LeoYeAI/openclaw-master-skills

Comprehensive quality control for CLIP-seq libraries (eCLIP, iCLIP, iCLIP2, PAR-CLIP) covering library complexity (preseq), FRiP, IDR replicate reproducibility, read-distribution metagene, SMInput…

GPTomics/bioSkills

A-share sector research: computes board-wide Top N gainers, cross-checks week/month announcement windows across two sources, and grades market-sentiment evidence (L1–L3), via parallel Agent Team…

daymade/claude-code-skills

Run read-only SQL against BigQuery public datasets with local result capture, cost safeguards, and reproducibility outputs.

ClawBio/ClawBio

Full statistical audit of experiment results. An agent skill from appleweiping/WEIPING_WIKI.

appleweiping/WEIPING_WIKI

QA an analysis before sharing with stakeholders — methodology checks, accuracy verification, and bias detection.

w95/awesome-claude-corporate-skills

Research-method workflow guide for hypothesis framing, peer-review style critique, reproducibility planning, study-design checks, and scientific-writing structure.

DrugClaw/DrugClaw

Read-only R code review protocol for .R scripts. An agent skill from pedrohcgs/claude-code-my-workflow.

pedrohcgs/claude-code-my-workflow

Controls error rates across thousands of simultaneous tests in genomics discovery using false-discovery-rate methods (Benjamini-Hochberg 1995; Benjamini-Yekutieli 2001 for arbitrary dependence…

GPTomics/bioSkills

Extracts cfDNA fragmentomics features (DELFI genome-wide short/long ratios, WPS nucleosome positioning, Griffin GC-corrected accessibility profiles, end-motifs/MDS, OCF) for cancer detection and…

GPTomics/bioSkills