How do I install the Cit2pmid skill?

Run npx skillmds@latest add vimalinx/cit2pmid in your terminal (requires Node.js), paste this page's agent-chat prompt into Claude, Cursor, or any MCP-connected agent, or download the SKILL.md file and copy it into your agent's skills directory.

Is Cit2pmid safe to use?

This skill has not completed SkillMD's automated safety review yet. Independent scanners report: SkillSpector: PASS, Skill Scanner: PASS. Capability flags: docs only. SkillMD never runs a skill's scripts for you; review the SKILL.md before installing.

Which AI agents work with Cit2pmid?

This skill is tagged as working with Claude Code, Claude.ai, OpenAI Codex. SKILL.md is an open format, so most agents that read a skills directory can load it too.

Is Cit2pmid free to use?

Yes. Installing skills from SkillMD is free, and the skill stays under its author's original license.

Who published Cit2pmid?

vimalinx (@vimalinx) published this skill. Their other Agent Skills are listed on their SkillMD profile.

Cit2pmid by vimalinx — Agent Skill

Name: Cit2pmid
Rating: 4.2 (5 reviews)
Author: vimalinx

File contents

cit2pmid

Quick Start

Command: cit2pmid -title "nucleotide sequences required for tn3 transposition immunity" -author "Kans JA" -author "Casadaban MJ" -journal "J Bacteriol" -year 1989 -volume 171 -issue 4 -page 1904-14
Local executable: /home/vimalinx/miniforge3/envs/bio/bin/cit2pmid
Reference: See references/help.md for detailed usage

When To Use This Tool

Resolve structured citation fields to candidate PMIDs.
Switch between remote, local, exact, verification, or E-utilities matching modes depending on available infrastructure.
Consume either explicit -title / -author / -journal fields or compact citation payloads via -asn or -cit.

Common Patterns

# 1) Query by explicit citation fields (default mode = remote)
/home/vimalinx/miniforge3/envs/bio/bin/cit2pmid \
  -title "nucleotide sequences required for tn3 transposition immunity" \
  -author "Kans JA" \
  -author "Casadaban MJ" \
  -journal "J Bacteriol" \
  -year 1989 \
  -volume 171 \
  -issue 4 \
  -page 1904-14

# 2) Read compact citation XML from stdin
cat citation.xml | \
  /home/vimalinx/miniforge3/envs/bio/bin/cit2pmid -cit -

# 3) Use a local archive-backed matching mode when configured
/home/vimalinx/miniforge3/envs/bio/bin/cit2pmid \
  -local \
  -title "Example title" \
  -author "Smith JA"

Recommended Workflow

Decide whether you want the default remote matcher, -eutils, -local, -exact, or -verify.
Supply citation content either as explicit field/value pairs or via -asn - / -cit - on stdin.
Start with the most specific fields you have, especially title, authors, journal, year, volume, issue, and first page.
Validate any returned PMIDs with downstream PubMed queries before trusting them in automation.

Guardrails

-help and -version are not metadata flags here; the parser treats them as field names and errors with "Missing -help argument" or "Missing -version argument".
Default mode is remote; -local and -exact require local archive infrastructure, while -verify chains local and remote logic.
Repeated -author arguments are interpreted as first author then last author.
Page ranges are truncated to the first page internally before matching.

---name: cit2pmiddescription: Use when resolving structured citation fields or citation XML into candidate PubMed IDs with EDirect matching modes.---# cit2pmid## Quick Start- **Command**: `cit2pmid -title "nucleotide sequences required for tn3 transposition immunity" -author "Kans JA" -author "Casadaban MJ" -journal "J Bacteriol" -year 1989 -volume 171 -issue 4 -page 1904-14`- **Local executable**: `/home/vimalinx/miniforge3/envs/bio/bin/cit2pmid`- **Reference**: See [references/help.md](references/help.md) for detailed usage## When To Use This Tool- Resolve structured citation fields to candidate PMIDs.- Switch between remote, local, exact, verification, or E-utilities matching modes depending on available infrastructure.- Consume either explicit `-title` / `-author` / `-journal` fields or compact citation payloads via `-asn` or `-cit`.## Common Patterns```bash# 1) Query by explicit citation fields (default mode = remote)/home/vimalinx/miniforge3/envs/bio/bin/cit2pmid \ -title "nucleotide sequences required for tn3 transposition immunity" \ -author "Kans JA" \ -author "Casadaban MJ" \ -journal "J Bacteriol" \ -year 1989 \ -volume 171 \ -issue 4 \ -page 1904-14``````bash# 2) Read compact citation XML from stdincat citation.xml | \ /home/vimalinx/miniforge3/envs/bio/bin/cit2pmid -cit -``````bash# 3) Use a local archive-backed matching mode when configured/home/vimalinx/miniforge3/envs/bio/bin/cit2pmid \ -local \ -title "Example title" \ -author "Smith JA"```## Recommended Workflow1. Decide whether you want the default remote matcher, `-eutils`, `-local`, `-exact`, or `-verify`.2. Supply citation content either as explicit field/value pairs or via `-asn -` / `-cit -` on stdin.3. Start with the most specific fields you have, especially title, authors, journal, year, volume, issue, and first page.4. Validate any returned PMIDs with downstream PubMed queries before trusting them in automation.## Guardrails- `-help` and `-version` are not metadata flags here; the parser treats them as field names and errors with "Missing -help argument" or "Missing -version argument".- Default mode is `remote`; `-local` and `-exact` require local archive infrastructure, while `-verify` chains local and remote logic.- Repeated `-author` arguments are interpreted as first author then last author.- Page ranges are truncated to the first page internally before matching.

Frequently asked questions

Cit2pmid