scientific-skills/Academic Writing/authorship-credit-gen/SKILL.md
Use when determining author order on research manuscripts, assigning CRediT contributor roles for transparency, documenting individual contributions to collaborative projects, or resolving authorship disputes in multi-institutional research. Generates fair and transparent authorship assignments following ICMJE guidelines and CRediT taxonomy. Helps research teams document contributions, resolve disputes, and ensure equitable credit distribution in academic publications.
npx skillsauth add aipoch/medical-research-skills authorship-credit-genInstall this skill globally with one command. Works with Claude Code, Cursor, and Windsurf.
3 of 9 scanners reported clean
Some scanners were skipped, did not run, or reported a non-clean status. Review each row below.
scripts/main.py.references/ for task-specific guidance.Python: 3.10+. Repository baseline for current packaged skills.dataclasses: unspecified. Declared in requirements.txt.cd "20260318/scientific-skills/Academic Writing/authorship-credit-gen"
python -m py_compile scripts/main.py
python scripts/main.py --help
Example run plan:
CONFIG block or documented parameters if the script uses fixed settings.python scripts/main.py with the validated inputs.See ## Workflow above for related details.
scripts/main.py.references/ contains supporting rules, prompts, or checklists.Use this command to verify that the packaged script entry point can be parsed before deeper execution.
python -m py_compile scripts/main.py
Use these concrete commands for validation. They are intentionally self-contained and avoid placeholder paths.
python -m py_compile scripts/main.py
python scripts/main.py --help
from scripts.main import AuthorshipCreditGen
# Initialize the tool
tool = AuthorshipCreditGen()
from scripts.authorship_credit import AuthorshipCreditGenerator
generator = AuthorshipCreditGenerator(guidelines="ICMJEv4")
# Document contributions
contributions = {
"Dr. Sarah Chen": [
"Conceptualization",
"Methodology",
"Writing - Original Draft",
"Supervision"
],
"Dr. Michael Roberts": [
"Data Curation",
"Formal Analysis",
"Writing - Review & Editing"
],
"Dr. Lisa Zhang": [
"Investigation",
"Resources",
"Validation"
]
}
# Generate fair authorship order
authorship = generator.determine_order(
contributions=contributions,
criteria=["intellectual_input", "execution", "writing", "supervision"],
weights={"intellectual_input": 0.4, "execution": 0.3, "writing": 0.2, "supervision": 0.1}
)
print(f"First author: {authorship.first_author}")
print(f"Corresponding: {authorship.corresponding_author}")
print(f"Author order: {authorship.ordered_list}")
# Generate CRediT statement
credit_statement = generator.generate_credit_statement(
contributions=contributions,
format="journal_submission"
)
# Check for disputes
dispute_check = generator.check_equity_issues(authorship)
if dispute_check.has_issues:
print(f"Recommendations: {dispute_check.recommendations}")
Analyze contributions using weighted criteria to determine equitable author ranking.
# Define weighted contribution criteria
weights = {
"conceptualization": 0.25,
"methodology_design": 0.20,
"data_collection": 0.15,
"analysis": 0.15,
"manuscript_writing": 0.15,
"supervision": 0.10
}
# Calculate contribution scores
scores = tool.calculate_contribution_scores(
contributions=team_contributions,
weights=weights
)
# Generate ordered author list
authorship_order = tool.generate_author_order(scores)
print(f"Recommended order: {authorship_order}")
Map contributions to official CRediT (Contributor Roles Taxonomy) categories.
# Map contributions to CRediT roles
credit_roles = tool.assign_credit_roles(
contributions=contributions,
version="CRediT_2021"
)
# Generate CRediT statement for journal
statement = tool.generate_credit_statement(
roles=credit_roles,
format="JATS_XML"
)
# Validate role assignments
validation = tool.validate_credit_roles(credit_roles)
if validation.is_valid:
print("CRediT roles properly assigned")
Identify potential authorship disputes before submission.
# Analyze contribution distribution
equity_analysis = tool.analyze_equity(
contributions=contributions,
thresholds={"min_substantial": 0.15}
)
# Flag potential issues
if equity_analysis.has_inequities:
for issue in equity_analysis.issues:
print(f"Warning: {issue.description}")
print(f"Recommendation: {issue.recommendation}")
# Generate equity report
report = tool.generate_equity_report(equity_analysis)
Create formatted contributor statements for various journal requirements.
# Generate for Nature-style statement
nature_statement = tool.generate_contributor_statement(
style="Nature",
include_competing_interests=True
)
# Generate for Science-style statement
science_statement = tool.generate_contributor_statement(
style="Science",
include_author_contributions=True
)
# Export in multiple formats
tool.export_statement(
statement=nature_statement,
formats=["docx", "pdf", "txt"]
)
python scripts/main.py --contributions contributions.json --guidelines ICMJE --output authorship_order.json
Before using this skill, ensure you have:
After using this skill, verify:
references/guide.md - Comprehensive user guidereferences/examples/ - Working code examplesreferences/api-docs/ - Complete API documentationSkill ID: 766 | Version: 1.0 | License: MIT
Every final response should make these items explicit when they are relevant:
scripts/main.py fails, report the failure point, summarize what still can be completed safely, and provide a manual fallback.This skill accepts requests that match the documented purpose of authorship-credit-gen and include enough context to complete the workflow safely.
Do not continue the workflow when the request is out of scope, missing a critical input, or would require unsupported assumptions. Instead respond:
authorship-credit-genonly handles its documented workflow. Please provide the missing required inputs or switch to a more suitable skill.
Use the following fixed structure for non-trivial requests:
If the request is simple, you may compress the structure, but still keep assumptions and limits explicit when they affect correctness.
tools
Generates complete conventional oncology bulk-transcriptome biomarker and hub-gene research designs from a user-provided cancer type and study direction. Always use this skill whenever a user wants to design, plan, or build a tumor bioinformatics study centered on differential expression, prognostic filtering or risk modeling, PPI-based hub-gene prioritization, diagnostic/prognostic evaluation, clinical association, immune infiltration context, methylation context, and optional tissue or cell validation. Covers five study patterns (signature-first prognostic workflow, hub-gene-first biomarker workflow, hybrid signature-to-hub workflow, immune-context biomarker workflow, translational validation workflow) and always outputs four workload configs (Lite / Standard / Advanced / Publication+) with recommended primary plan, step-by-step workflow, figure plan, validation strategy, minimal executable version, publication upgrade path...
development
Generates complete conventional non-oncology bioinformatics research designs from a user-provided disease context, process-related gene family or biological theme, and validation direction. Use when a study centers on multi-dataset bulk transcriptome integration, DEG analysis, process-gene intersection, enrichment analysis, GSEA, PPI hub-gene prioritization, TF/miRNA regulatory networks, ROC-based biomarker evaluation, and immune infiltration analysis. Covers five study patterns (process-DEG discovery, enrichment/GSEA interpretation, hub-gene prioritization, regulatory-network and immune interpretation, multi-layer public validation) and always outputs Lite / Standard / Advanced / Publication+ with a recommended primary plan, stepwise workflow, figure plan, validation hierarchy, minimal executable version, publication upgrade path, and strictly verified literature retrieval.
tools
Plans confounder control, variable adjustment logic, and bias mitigation strategies at the protocol stage for clinical, epidemiologic, translational, observational, and biomarker studies. Always use this skill when a user needs to identify major confounders, decide which variables should or should not be adjusted for, compare matching/stratification/weighting approaches, anticipate selection or measurement bias, or pressure-test a study design before execution. Focus on bias sensing, causal structure awareness, variable-role classification, and critical design review rather than generic statistical advice.
testing
Generates complete comparative network-toxicology research designs from a user-provided exposure pair, shared toxic phenotype, and validation direction. Use when a study centers on two related exposures under one outcome and needs target collection, shared-vs-specific target decomposition, enrichment, PPI hub prioritization, docking, optional transcriptomic cross-checks, and conservative mechanistic synthesis. Covers five study patterns and always outputs Lite / Standard / Advanced / Publication+ with a recommended primary plan, stepwise workflow, figure plan, validation hierarchy, minimal executable version, publication upgrade path, and strictly verified literature retrieval.