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flowreg-register-session

flowreg-register-session is a skill for Claude Code from FlowRegSuite/flowreg-agent-skills. It costs 70 tokens per session (1,784 once invoked), scanned A, original, MIT.

A workflow for putting several separately recorded microscopy files into one shared coordinate system, so the same location can be compared across recordings. A longitudinal study is a study that follows samples or subjects over multiple dates.

In plain words
What is it for?
Use it for multi-file, multi-day, or multi-session studies that need shared coordinates, checkpointing, cluster processing, or one mask of pixels valid in every recording.
Why use it?
It prevents regions of interest—selected areas such as cells or vessels—from shifting to different coordinates between sessions and supports resumable large jobs.

Skill for Claude Code

Written for Claude Code: shipped in a Claude Code plugin.

Part of the flowreg-agent-skills plugin — 7 skills shipped together

not rated 2repo 3mo ago A scan 70 tokens original MIT

Good fit Use it for multi-file, multi-day, or multi-session studies that need shared coordinates, checkpointing, cluster processing, or one mask of pixels valid in every recording.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/flowregsuite/flowreg-agent-skills/flowreg-register-session
View source ↗ FlowRegSuite/flowreg-agent-skills
Install

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.

Any agent
npx skills add FlowRegSuite/flowreg-agent-skills --skill flowreg-register-session
Clone the repo
git clone --depth 1 https://github.com/FlowRegSuite/flowreg-agent-skills

Made for: Claude Code.

Or install flowreg-agent-skills, the plugin that ships this one along with the rest of its 7 skills.

Wrote 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.

agentmods badge for flowreg-register-session

README.md
[![agentmods](https://agentmods.dev/badge/skills/flowregsuite/flowreg-agent-skills/flowreg-register-session/github.svg)](https://agentmods.dev/skills/flowregsuite/flowreg-agent-skills/flowreg-register-session)
Your own site
<a href="https://agentmods.dev/skills/flowregsuite/flowreg-agent-skills/flowreg-register-session"><img src="https://agentmods.dev/badge/skills/flowregsuite/flowreg-agent-skills/flowreg-register-session/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.

agentmods 80×15 button for flowreg-register-session

Your own site · 80×15
<a href="https://agentmods.dev/skills/flowregsuite/flowreg-agent-skills/flowreg-register-session"><img src="https://agentmods.dev/badge/skills/flowregsuite/flowreg-agent-skills/flowreg-register-session.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 70 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 1,784 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe.
Origin original No closer match found in the catalogue.
Token cost

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.

ModelPer sessionOnce invoked
Fable 5.1 $0.00070 $0.01784
Opus 5.5 $0.00028 $0.00714
Sonnet 5.5 $0.00014 $0.00357
Haiku 4.5 $0.00007 $0.00178

Measured 2mo ago against content hash dcab948f0b19, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

Grade A, and why

flowreg-register-session 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 2mo 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.

skills/flowreg-register-session/SKILL.md · 153 lines

How it starts

The opening of the file, as written. The whole thing — 153 lines — stays where its author put it; the contents beside it link to each section on GitHub.

Multi-recording session alignment

1. Purpose

Put several recordings into one coordinate system with one objective valid mask, so that a region of interest means the same thing in every recording and comparisons across time are fair.

2. Use this skill when

  • Several separately acquired recordings must share coordinates.
  • A longitudinal study needs one ROI across days or sessions.
  • A study is large enough to need checkpointing, resume, or cluster execution.
  • You need a consensus mask of pixels observed in-bounds in all recordings.

3. Do not use this skill when

  • There is one recording, even if it is split across several files by an instrument limit → use flowreg-register-2d and pass the file list.
  • The recordings will be analysed independently and need no shared ROI → run flowreg-register-2d per recording; session machinery adds cost without benefit.
  • The problem is axial drift relative to a reference volume → flowreg-correct-z-drift.
  • The data are volumes → flowreg-register-3d.

4. Required inputs and metadata

  • A session root directory and a glob pattern that selects exactly the intended recordings.
  • Which recording is the centre (anchor). The default is the lexicographic middle file, which is not necessarily the chronological middle — check and set it explicitly if they differ.
  • Consistent channel count, dimensions and axis order across recordings. Verify; do not assume.
  • Recording order, and whether it is chronological.
  • A writable output root and final-results directory, outside the source data.
  • For cluster execution: scheduler type, and whether array jobs or Dask are intended.

5. Preflight checks

  1. Read references/runtime-capability.md for the verified stage entry points and CLI.
  2. Resolve the file list from root and pattern, and show it to the user. A wrong glob silently changes the science.
  3. Confirm every recording has the same channel count, dimensions and axis order.
  4. Confirm the recordings are genuinely separate acquisitions, not chunks of one.
  5. Confirm the centre choice, and say why it is representative.
  6. Check free disk against the estimated total: session mode writes a corrected copy of every recording, plus averages, masks and optionally reprojected videos.
  7. Check whether z offsets are suspected between recordings — see section 7.

Read the full file on GitHub · 153 lines

Files

What ships with it

3 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.

Changes

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.

  1. 2mo ago First seen · 153 lines · 70 tokens per session scan A dcab948f0b19

Subscribe to this mod's changes

flowreg-register-session is a skill published in the GitHub repository FlowRegSuite/flowreg-agent-skills (2 stars, last pushed 3mo ago), licensed MIT. It adds 70 tokens to every session and 1,784 once invoked, about $0.0003 per session on Opus 5.5. 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 2026-08-31.

Scientific
Related

flowreg-register-session compared with skills from other repositories

flowreg-register-session next to 6 skills from other repositories
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