Bio Long Read Sequencing Medaka Polishing
Polishes Oxford Nanopore draft assemblies to higher consensus accuracy with medaka, a basecaller-model-specific neural consensus net, produces haploid variant calls (VCF) for microbial, mitochondrial, or viral samples, and generates amplicon/viral consensus sequences. Covers the model-matching footgun that silently degrades output, why Racon-first is obsolete and medaka runs directly on Flye output as a single pass, why HiFi must never be fed to medaka, the v1->v2 subcommand renames, and the precise medaka_variant deprecation. Use when polishing an ONT-only assembly, generating an amplicon/viral consensus, calling a haploid ONT consensus, or deciding whether medaka, dorado polish, or Clair3 is the right tool.
Security AStatic scan found no risk patternsHow grading works ›
What this skill does
Bio Long Read Sequencing Medaka Polishing is a community-contributed Claude Code skill in the general-misc sub-category. It ships as a SKILL.md file that Claude Code auto-discovers under ~/.claude/skills/bio-long-read-sequencing-medaka-polishing/ and loads when your prompt matches the skill's trigger.
When to invoke it: Use when polishing an ONT-only assembly, generating an amplicon/viral consensus, calling a haploid ONT consensus, or deciding whether medaka, dorado polish, or Clair3 is the right tool.
Who uses this skill
The Bio Long Read Sequencing Medaka Polishing Claude Code skill is built for Claude Code users and developers across all disciplines looking for general-purpose AI assistance. It's part of ClaudSkills (also referred to as Claude Skills or Claude Code Skills) — the open community-curated registry of 174,000+ SKILL.md files for Anthropic's Claude Code agent and the wider Claude ecosystem (Claude API, Claude Agent SDK).
How to install
Free
Manual install (2 steps)
mkdir -p ~/.claude/skills/bio-long-read-sequencing-medaka-polishing
curl -L https://claudskills.com/skills/bio-long-read-sequencing-medaka-polishing/SKILL.md \
-o ~/.claude/skills/bio-long-read-sequencing-medaka-polishing/SKILL.md
Or just download SKILL.md directly and drop it into ~/.claude/skills/bio-long-read-sequencing-medaka-polishing/. Claude Code auto-discovers it on next session.
Skills live at ~/.claude/skills/bio-long-read-sequencing-medaka-polishing/SKILL.md on macOS/Linux, or %USERPROFILE%\.claude\skills\bio-long-read-sequencing-medaka-polishing\SKILL.md on Windows. See the full install guide for step-by-step instructions.
Telegram
📱 Install from your phone or desktop Telegram
Open @claudskills_bot on Telegram, tap Open Desktop App, and the desktop app installs this skill for you. Or share the bot link with a colleague — they get the same one-tap install. Learn more →
Pro
One-click install via the desktop app
The ClaudSkills desktop app installs any skill directly into ~/.claude/skills/ with one click — no terminal required. Pro starts at $9/mo or $149 lifetime.
Pro
For the full experience including quality scoring and one-click install features for each skill — upgrade to Pro.
Frequently asked questions
How do I install the Bio Long Read Sequencing Medaka Polishing Claude Code skill?
Install via the ClaudSkills desktop app (one click) or copy
SKILL.md from the source repository to
~/.claude/skills/bio-long-read-sequencing-medaka-polishing/SKILL.md and restart Claude Code. Both flows are detailed at
claudskills.com/install/.
What does the Bio Long Read Sequencing Medaka Polishing skill do?
Polishes Oxford Nanopore draft assemblies to higher consensus accuracy with medaka, a basecaller-model-specific neural consensus net, produces haploid variant calls (VCF) for microbial, mitochondrial, or viral samples, and generates amplicon/viral consensus sequences. Covers the model-matching footgun that silently degrades output, why Racon-first is obsolete and medaka runs directly on Flye output as a single pass, why HiFi must never be fed to medaka, the v1->v2 subcommand renames, and the precise medaka_variant deprecation. Use when polishing an ONT-only assembly, generating an amplicon/viral consensus, calling a haploid ONT consensus, or deciding whether medaka, dorado polish, or Clair3 is the right tool.
Is this skill free to install?
Yes. ClaudSkills is an open registry — every skill keeps its source repository's license, and manual install via copy is free. ClaudSkills Pro ($9/mo, $79/yr, or $149 one-time) adds one-click install via the desktop app and a multi-signal Quality Score.
When should I use the Bio Long Read Sequencing Medaka Polishing skill?
Use Bio Long Read Sequencing Medaka Polishing when your Claude Code task falls under the General category — specifically in the general misc area. Claude Code auto-discovers installed skills and invokes the right one based on the task description, so you can also ask Claude directly (e.g. "use Bio Long Read Sequencing Medaka Polishing" or describe the task and let Claude pick). Browse related skills at
/category/general/.
What is a Claude Code skill and how does the Bio Long Read Sequencing Medaka Polishing skill fit in?
A Claude Code skill is a
SKILL.md file that lives under
~/.claude/skills/<name>/ and tells the Claude Code CLI agent how to perform a specific task (instructions, prompts, allowed tools). Skills are auto-discovered at session start. Bio Long Read Sequencing Medaka Polishing is one of 67,000+ skills indexed in the open ClaudSkills catalog, classified under the General category. Learn more at
/learn/what-is-a-claude-skill/.
Attribution & license
Cite this skill
If you reference this skill in a blog post, paper, or documentation, you can cite it as:
APA
bg-szy. (2026). Bio Long Read Sequencing Medaka Polishing [Claude Code skill]. ClaudSkills. https://claudskills.com/skills/bio-long-read-sequencing-medaka-polishing/
BibTeX
@misc{bio-long-read-sequencing-medaka-polishing-2026,
author = {bg-szy},
title = {Bio Long Read Sequencing Medaka Polishing [Claude Code skill]},
year = {2026},
publisher = {ClaudSkills},
url = {https://claudskills.com/skills/bio-long-read-sequencing-medaka-polishing/}
}Embed this skill
Promote, attribute, or link this skill from your own README, blog post, or documentation. All three snippets are free to use — no sign-up, no API key. More distribution surfaces →
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Security scan
Grade A · scanned 2026-08-02 — free static scan against the OWASP Agentic Skills Top 10.
No risk patterns were found in any of the ten OWASP-aligned categories. How grading works ›
- ✓ Prompt injection
- ✓ Data exfiltration
- ✓ Supply chain
- ✓ Reverse shell
- ✓ Credentials
- ✓ Execution
- ✓ Filesystem
- ✓ Persistence
- ✓ Obfuscation
- ✓ Network
Show this grade on your repo (click to copy):
[](https://claudskills.com/skills/bio-long-read-sequencing-medaka-polishing/#security)
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