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Agent skill

Molcell Workflow

by brycewang-stanford in brycewang-stanford/Awesome-Journal-Skills

A skill your agent uses when deciding which molcell- sub-skill to invoke next, or when sequencing a manuscript from mechanism-fit test through reviewer rebuttal for Molecular Cell (Mol.

MITAuto-check passedResearch & Science

Install Molcell Workflow

skills CLI
$ npx skills add brycewang-stanford/Awesome-Journal-Skills --skill molcell-workflow -a claude-code

Project install by default; add -g for ~/.claude/skills/.

GitHub CLI
$ gh skill install brycewang-stanford/Awesome-Journal-Skills molcell-workflow --agent claude-code

Project scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).

Manual copy
$ git clone --depth 1 https://github.com/brycewang-stanford/Awesome-Journal-Skills.git skills-src && mkdir -p .claude/skills && cp -r skills-src/Molecular-Cell-Skills/skills/molcell-workflow .claude/skills/molcell-workflow && rm -rf skills-src

Use ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.

Claude Code skills documentation · loads skills from .claude/skills/

Facts

Skill name
molcell-workflow
GitHub stars
1.2k
Token cost
~2k tokens
SKILL.md length
796 words
Files
1
Skills in repo
2,387
Repo updated
First seen
Licence
MIT

At a glance

A skill your agent uses when deciding which molcell- sub-skill to invoke next, or when sequencing a manuscript from mechanism-fit test through reviewer rebuttal for Molecular Cell (Mol.

  • Works in 11 steps: molcell-fit — clear the… → molcell-framing — lock the… → molcell-writing — Article structure and… → …
  • Deciding which molcell- sub-skill to invoke next
  • SKILL.md covers Overview, The single most important idea…, When to trigger and The single most important gate, plus 6 more sections
  • Instructions only: no scripts, shell commands, URLs or credentials in SKILL.md

What it does

Molcell Workflow is an agent skill from brycewang-stanford/Awesome-Journal-Skills. Use when deciding which molcell- sub-skill to invoke next, or when sequencing a manuscript from mechanism-fit test through reviewer rebuttal for Molecular Cell (Mol. Cell, Cell Press). Routes to the specialized skills — it does not replace them.

Its SKILL.md is about 2k tokens, which your agent loads only when the skill is triggered. It is a single SKILL.md file with no bundled scripts.

It sits in Research & Science. The repository describes itself as: Journal-specific Claude Code/Codex skill packs covering mainstream journals — AER, QJE, Nature, Cell, 管理世界, 经济研究 & 200+ more — your fast track to getting published. ｜ 覆盖主流期刊的… The licence is MIT.

When your agent uses it

  • Deciding which molcell- sub-skill to invoke next
  • Sequencing a manuscript from mechanism-fit test through reviewer rebuttal for Molecular Cell (Mol

Example prompts

  • “/molcell-workflow”

Workflow steps

11 steps, taken from the first numbered list in SKILL.md.

  1. molcell-fit — clear the mechanistic-depth + orthogonal-validation bar first
  2. molcell-framing — lock the single-mechanism arc (question → mechanism → physiological consequence)
  3. molcell-writing — Article structure and the ~7,000-word / ~7-item budget
  4. molcell-figures — finalize display items; show the data; blot/structure integrity
  5. molcell-star-methods — Key Resources Table + Resource Availability + QSA
  6. molcell-data — GEO/PDB/PRIDE deposition and the availability statement
  7. molcell-summary — the Summary (late polish)
  8. molcell-highlights — Highlights + eTOC blurb + Graphical Abstract (late polish)
  9. molcell-citation — Cell Press numbered-reference pass (late polish)
  10. molcell-submission — cover letter + preflight
  11. molcell-rebuttal — after review

What it can do on your machine

Read from SKILL.md and the folder at commit 932eb23. It shows what the files ask for, not the result of running them.

  • Tool permissions

    Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.

    From allowed-tools in the SKILL.md frontmatter.

  • Runs code

    No scripts in the folder and no shell commands in SKILL.md.

    From the folder's file list and the shell code blocks in SKILL.md.

  • Network

    No URLs in SKILL.md.

    From URLs in SKILL.md, links to its own repository left out.

  • Credentials

    Names no API keys, tokens, secrets or passwords.

    From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.

Context cost

Molcell Workflow loads about 2k tokens when it runs. Until then it costs about 66 tokens; SKILL.md has 796 words of instructions outside code blocks.

Always · name and description, kept in context so the agent knows when to use it
~66
When it runs · the whole SKILL.md, loaded when a task matches
~2k

Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.

Safety

Auto-check passed

The automated check found no risky patterns in SKILL.md.

Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); files beside SKILL.md are not scanned.

SKILL.md

The full file from brycewang-stanford/Awesome-Journal-Skills at commit 932eb23, republished under its MIT licence (© brycewang-stanford). 796 words, ~1,975 tokens.

Download SKILL.mdSave it as .claude/skills/molcell-workflow/SKILL.md (or your agent's skills folder).
name
molcell-workflow
description
Use when deciding which molcell-* sub-skill to invoke next, or when sequencing a manuscript from mechanism-fit test through reviewer rebuttal for Molecular Cell (Mol. Cell, Cell Press). Routes to the specialized skills — it does not replace them.

Molecular Cell Workflow Router (molcell-workflow)

Overview

This is the router. It does not do the work of any specialized skill; it names which molcell- skill fits the current stage* of a manuscript aimed at Molecular Cell (Cell Press).

Default assumption: unless told otherwise, the target is Molecular Cell — the mechanism-focused molecular-biology flagship — not Cell, Cell Reports, Molecular Cell's sibling Structure, or a field-specific title. The Cell Press family shares STAR Methods, the Key Resources Table, Highlights, the eTOC blurb, the Graphical Abstract, and (now) numbered references, but the venues differ sharply on what kind of advance they reward.

The single most important idea about Molecular Cell

Cell asks "does this reframe a broad field?" Molecular Cell asks a different question: "is the molecular mechanism worked out to the base-pair, residue, or single-molecule level, and proven by orthogonal approaches?" Depth of mechanism beats breadth of implication here. A correlative or descriptive story — even a broadly interesting one — is rejected before review if the how is not nailed down biochemically and structurally/genetically. Route to molcell-fit first, always.

When to trigger

  • "What should I do next with this draft?"
  • A draft arrives and you must diagnose the current bottleneck.
  • The author is bouncing between bench work, writing, and revision and has lost the thread.
  • Reviews arrive from Molecular Cell and you need to switch into rebuttal mode.

The single most important gate

Molecular Cell editors triage most submissions to rejection without external review. The bar is mechanistic depth + orthogonal validation + physiological relevance, not novelty of the phenotype alone. The first question is never "is the result interesting?" — it is "is the molecular mechanism established by independent methods, and does it operate in a physiological context?" Route to molcell-fit first.

Routing table

Current symptomNext skill
Not sure the mechanism is deep/validated enough for Mol. Cellmolcell-fit
Mechanism is solid but the arc reads as a technique listmolcell-framing
Main text over ~7,000 words; Discussion recaps Resultsmolcell-writing
Figures over ~7; data hidden; stats/gels/structures offmolcell-figures
No Key Resources Table / Resource Availability incompletemolcell-star-methods
No GEO/PDB/PRIDE deposition plan or accessionsmolcell-data
Summary is long, structured, or names no mechanismmolcell-summary
No Highlights / eTOC blurb / Graphical Abstractmolcell-highlights
References are author–date or otherwise not Cell Press numberedmolcell-citation
About to submit; need a preflight + cover lettermolcell-submission
Received reviews / a revision decisionmolcell-rebuttal

Default order

  1. molcell-fit — clear the mechanistic-depth + orthogonal-validation bar first
  2. molcell-framing — lock the single-mechanism arc (question → mechanism → physiological consequence)
  3. molcell-writing — Article structure and the ~7,000-word / ~7-item budget
  4. molcell-figures — finalize display items; show the data; blot/structure integrity
  5. molcell-star-methods — Key Resources Table + Resource Availability + QSA
  6. molcell-data — GEO/PDB/PRIDE deposition and the availability statement
  7. molcell-summary — the Summary (late polish)
  8. molcell-highlights — Highlights + eTOC blurb + Graphical Abstract (late polish)
  9. molcell-citation — Cell Press numbered-reference pass (late polish)
  10. molcell-submission — cover letter + preflight
  11. molcell-rebuttal — after review

molcell-summary, molcell-highlights, and molcell-citation are late-stage polish. Do not perfect the Highlights before the mechanism and figures are settled.

Show full SKILL.md (302 more words)Show less

Decision shortcuts

  • "We see a strong phenotype but haven't shown the molecular cause" → molcell-fit (likely not yet a Mol. Cell story)
  • "The paper is really three techniques stapled together" → molcell-framing
  • "My Methods is a free-text section" → molcell-star-methods (Molecular Cell uses STAR Methods)
  • "My antibodies/plasmids/strains aren't tabulated" → molcell-star-methods (Key Resources Table)
  • "My references are (Author, year)" → molcell-citation (Cell Press is now numbered superscript)
  • "No GEO/PDB/PRIDE accession yet" → molcell-data

How Molecular Cell differs from its siblings

  • Molecular Cell vs Cell: Cell wants a complete story with broad, cross-field significance. Molecular Cell wants the molecular mechanism proven deeply in a defined domain (gene expression, chromatin/epigenetics, RNA biology, DNA replication/repair, signaling, proteostasis, protein structure/function). If breadth is thin but the mechanism is deep and rigorous, Molecular Cell is the better home.
  • Molecular Cell vs Cell Reports: Cell Reports is more accepting of solid, complete, but less mechanistically deep work.
  • Molecular Cell vs Nature Structural & Molecular Biology / EMBO J / Genes & Dev: strong overlap in scope; Molecular Cell skews toward the deepest, most complete mechanistic stories with orthogonal validation.
  • References are numbered at Molecular Cell (Cell Press moved to a numbered superscript style across its journals) — do not port author–date citations in unconverted.

Stage tracker (fill and re-run the router)

Keep this manifest with the draft; the top unfinished row names the skill to invoke next. The gate row must clear before any polish row is touched.

MOLECULAR CELL MANUSCRIPT — stage tracker
one-line story : [question → the molecular mechanism → physiological consequence]
sibling check  : Mol. Cell vs Cell / Cell Reports / NSMB / EMBO J

stage                          status        next skill
-----------------------------  ------------  --------------------
GATE: deep mechanism +         [in-progress] molcell-fit
      orthogonal validation
single-mechanism arc           [todo]        molcell-framing
article text + length (~7k w)  [todo]        molcell-writing
figure budget (~7 items)       [todo]        molcell-figures
STAR Methods + KRT + QSA       [todo]        molcell-star-methods
data / code deposition         [todo]        molcell-data
Summary                        [todo]        molcell-summary     (late)
Highlights / eTOC / GA         [todo]        molcell-highlights  (late)
numbered references            [todo]        molcell-citation    (late)
cover letter + preflight       [todo]        molcell-submission
reviews / revision             [—]           molcell-rebuttal

rule: if the GATE row is not [done], every row below stays frozen.

Anti-patterns

  • Do not skip molcell-fit and polish prose — the modal outcome for a mechanism-thin draft is pre-review rejection.
  • Do not build the Graphical Abstract before the single-mechanism arc is locked in molcell-framing.
  • Do not treat Methods as a free-text section — Molecular Cell requires STAR Methods.
  • Do not leave numbered/author–date reference confusion until upload — Molecular Cell is numbered.

All conventions here are working defaults — confirm against the current Molecular Cell information-for-authors page.

© brycewang-stanford, MIT. Rendered from Markdown: HTML in the file is shown as text, images as links, and headings moved down two levels. Raw file

Files

Just SKILL.md in Molecular-Cell-Skills/skills/molcell-workflow of brycewang-stanford/Awesome-Journal-Skills.

Open the folder on GitHubat commit 932eb23

Compare with similar skills

Molcell Workflow next to the 5 skills that share the most tags, products or categories with it. Stars are the repository's; “used in” counts other GitHub owners with a copy.

Molcell Workflow compared with similar skills
SkillStarsUsed inTokensAuto-checkLicenceRepo updated
Molcell Workflow this skillbrycewang-stanford/Awesome-Journal-Skills1.2k—~2kAutomated safety check: PassMIT
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GitHub Deep Researchbytedance/deer-flow83k5 repos~1.3kAutomated safety check: PassMIT
Nature Paper CardYuan1z0825/nature-skills46k2 repos~2.1kAutomated safety check: PassApache-2.0
Read arXiv Paperkarpathy/nanochat58k2 repos~494Automated safety check: PassMIT
Content Research Writerweapp-tailwindcss/weapp-tailwindcss1.9k25 repos~3.5kAutomated safety check: PassMIT

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Categories

Questions about Molcell Workflow

What does Molcell Workflow do?

A skill your agent uses when deciding which molcell- sub-skill to invoke next, or when sequencing a manuscript from mechanism-fit test through reviewer rebuttal for Molecular Cell (Mol. Molcell Workflow is an agent skill from brycewang-stanford/Awesome-Journal-Skills. Use when deciding which molcell- sub-skill to invoke next, or when sequencing a manuscript from mechanism-fit test through reviewer rebuttal for Molecular Cell (Mol.

When should I use Molcell Workflow?

Molcell Workflow fits situations like: deciding which molcell- sub-skill to invoke next; sequencing a manuscript from mechanism-fit test through reviewer rebuttal for Molecular Cell (Mol.

How do I install Molcell Workflow in Claude Code?

Run `npx skills add brycewang-stanford/Awesome-Journal-Skills --skill molcell-workflow -a claude-code`. Or copy the skill folder (Molecular-Cell-Skills/skills/molcell-workflow in brycewang-stanford/Awesome-Journal-Skills) into .claude/skills/molcell-workflow in your project. Claude Code loads it when a task matches its description.

How do I install Molcell Workflow in Codex?

Run `npx skills add brycewang-stanford/Awesome-Journal-Skills --skill molcell-workflow -a codex`. Or copy the skill folder (Molecular-Cell-Skills/skills/molcell-workflow in brycewang-stanford/Awesome-Journal-Skills) into .agents/skills/molcell-workflow in your project. Codex loads it when a task matches its description.

Can I use Molcell Workflow in Cursor, Gemini CLI or GitHub Copilot?

Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add brycewang-stanford/Awesome-Journal-Skills --skill molcell-workflow -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/molcell-workflow, .gemini/skills/molcell-workflow, .github/skills/molcell-workflow and .opencode/skills/molcell-workflow in your project.

What does Molcell Workflow need to run?

SKILL.md names no scripts, command-line tools or credentials: Molcell Workflow is instructions for the agent only.

Does Molcell Workflow access the network?

SKILL.md contains no URLs. Any network use would come from the scripts or tools the agent runs. This is read from the text; nothing was executed.

Is Molcell Workflow safe to install?

Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. Review the folder before installing.

What licence does Molcell Workflow use?

Molcell Workflow is published under the MIT licence (the repository's licence). It allows redistribution, so the full SKILL.md is shown on this page.

How many tokens does Molcell Workflow use?

About 2k tokens (SKILL.md is roughly 7.9k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.

What are the alternatives to Molcell Workflow?

Skills that share tags, products or a category with Molcell Workflow: Hypothesis Generation (spacering-net/codeg, 3.8k stars), GitHub Deep Research (bytedance/deer-flow, 83k stars), Nature Paper Card (Yuan1z0825/nature-skills, 46k stars) and Read arXiv Paper (karpathy/nanochat, 58k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.

Who maintains Molcell Workflow?

brycewang-stanford (a GitHub user) maintains it in brycewang-stanford/Awesome-Journal-Skills, which has 1,219 GitHub stars. The repository holds 2,387 skills in this directory. The repository was last updated on September 27, 2026.

Source: brycewang-stanford/Awesome-Journal-Skills on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.