Medical Research Agent Skills is a library of agent instructions for medical and biomedical research, covering evidence analysis, study protocol design, data analysis, and academic writing. Researchers use it to guide compatible coding agents through common scientific workflows. The catalogue contains many of the library's skills and commands.
Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx skills add aipoch/medical-research-skills --skill time-dependent-rocgit clone --depth 1 https://github.com/aipoch/medical-research-skillsWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/skills/aipoch/medical-research-skills/time-dependent-roc)<a href="https://agentmods.dev/skills/aipoch/medical-research-skills/time-dependent-roc"><img src="https://agentmods.dev/badge/skills/aipoch/medical-research-skills/time-dependent-roc/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/skills/aipoch/medical-research-skills/time-dependent-roc"><img src="https://agentmods.dev/badge/skills/aipoch/medical-research-skills/time-dependent-roc.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- NVIDIA SkillSpector pass
What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00078 | $0.01650 |
| Opus 5 | $0.00039 | $0.00825 |
| Sonnet 5 | $0.00016 | $0.00330 |
| Haiku 4.5 | $0.00008 | $0.00165 |
Grade A, and why
time-dependent-roc scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 9d ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
How it starts
The opening of the file, as written. The whole thing — 179 lines — stays where its author put it; the contents beside it link to each section on GitHub.
Time-Dependent ROC Analysis
Use this skill to compute and plot time-dependent ROC curves for survival outcomes.
Use This Skill When
- You have survival data with
futimeandfustatcolumns. - You need time-specific ROC curves and AUC values for a numeric risk marker.
- You want a command-line workflow with parameter validation and standardized outputs.
- Your file contains a numeric marker column named
risk_score, or you will provide another marker explicitly with--marker_col.
Primary Command
Rscript scripts/main.R \
--data_file <input_file> \
--times <comma_separated_times> \
--output_dir <output_dir>
Prerequisites
Rscriptis available in the shell.- Required R packages:
optparse,timeROC,survival,ggplot2. - Optional package for Excel input:
openxlsx. - Install missing packages with
Rscript -e 'install.packages(c("optparse", "timeROC", "survival", "ggplot2", "openxlsx"), repos="https://cloud.r-project.org")'.
Core Arguments
| Argument | Required | Description |
|---|---|---|
--data_file |
Yes | Input data file in CSV, TXT, TSV, TAB, XLS, or XLSX format |
--times |
No | Prediction time points, comma-separated. Default 1,3,5 |
--marker_col |
No | Marker column name. Default risk_score; provide this option when your file uses a different marker |
--output_dir |
No | Output directory, default ./TimeROC_Results |
--time_unit |
No | Time unit label for plot/output: year, month, or day. Default year |
--auto_convert_days |
No | If TRUE, convert large futime values from days to the selected unit when appropriate. Default TRUE |
--weighting |
No | IPCW weighting method: aalen, marginal, or cox. Default aalen |
--cause |
No | Event code treated as the outcome of interest. Default 1 |
Input Requirements
- The input file must contain
futimeandfustatcolumns. - The selected marker column must exist and be numeric or coercible to numeric.
- If
--marker_colis omitted, the input file must containrisk_score. futimemust be numeric or coercible to numeric.fustatmust be numeric or coercible to numeric.- Rows with missing
futime,fustat, or marker values are excluded. - At least 5 complete rows and at least 1 event for the requested
causeare required.
What ships with it
11 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.
- eval_report_time-dependent-roc_result.json 15 KB
- references/algorithm.md 2.7 KB
- references/cli-guide.md 3.4 KB
- references/troubleshooting.md 4.3 KB
- scripts/functions.R 9.0 KB
- scripts/main.R 6.5 KB
- scripts/run_analysis.R 1.9 KB
- scripts/utils.R 4.9 KB
- tests/data/time_roc_sample1.txt 16 KB
- tests/data/time_roc_sample2.txt 5.5 KB
- tests/data/time_roc_sample3.txt 21 KB
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 9d ago First seen · 179 lines · 78 tokens per session scan A d40f27d6982a
time-dependent-roc is a skill published in the GitHub repository aipoch/medical-research-skills (1,860 stars, last pushed 1mo ago), licensed MIT. It adds 78 tokens to every session and 1,650 once invoked, about $0.0004 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-09-03.
Other skills, from other repositories
statistical-modeling
Statistical modeling and machine learning for biomarker discovery, survival analysis, classification, regression, and model interpretation.
bulk-transcriptomics
Bulk RNA-seq and microarray differential expression analysis including method selection, batch correction, and complex experimental designs.
chromatin-regulation
Chromatin regulation analysis from called peaks and count matrices — differential binding, signal summarisation, peak annotation, and scATAC-seq.
spatial-omics
Spatial transcriptomics and spatial proteomics analysis covering technology-specific workflows, spatial statistics, deconvolution, and niche analysis.
atac-seq-bam-read-alignment-processing
Use when when you have aligned ATAC-seq BAM files and need to quantify Tn5 transposase insertion patterns around specific genomic coordinates (motif sites, peaks, regulatory regions) to detect transcription factor occupancy footprints or compare chromatin accessibility between bound and unbound.
bedgraph-file-format-manipulation
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 downstream statistical comparison or peak detection.