Bio Phasing Imputation Foundations
Frames the phasing/imputation pipeline before any tool runs: phasing and imputation are one Li-Stephens copying HMM (recombination is the transition, mutation the emission, the genetic map and Ne set the rates), imputation's honest output is a dosage with a self-estimated quality (INFO/R2/DR2) not a hard genotype, and the stages are ordered and each fails silently (QC, align build and strand to the panel, phase, impute per chromosome, filter by INFO/R2 plus a MAF floor, carry dosages to GWAS). Covers the strategy fork (array vs low-coverage WGS plus genotype-likelihood imputation), why the panel ancestry is the prior, and why a flipped strand or build mismatch destroys accuracy without an error. Use when deciding a genotyping strategy, sequencing the pipeline, choosing array vs low-coverage WGS, or diagnosing silently-wrong imputation. Mechanics route to reference-panels, haplotype-phasing, genotype-imputation, imputation-qc; read-backed phasing is long-read-sequencing/haplotype-phasing.
Security AStatic scan found no risk patternsHow grading works ›
What this skill does
Bio Phasing Imputation Foundations 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-phasing-imputation-foundations/ and loads when your prompt matches the skill's trigger.
When to invoke it: Use when deciding a genotyping strategy, sequencing the pipeline, choosing array vs low-coverage WGS, or diagnosing silently-wrong imputation. Mechanics route to reference-panels, haplotype-phasing, genotype-imputation, imputation-qc; read-backed phasing is long-read-sequencing/haplotype-phasing.
Who uses this skill
The Bio Phasing Imputation Foundations 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 196,000+ 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-phasing-imputation-foundations
curl -L https://claudskills.com/skills/bio-phasing-imputation-foundations/SKILL.md \
-o ~/.claude/skills/bio-phasing-imputation-foundations/SKILL.md
Or just download SKILL.md directly and drop it into ~/.claude/skills/bio-phasing-imputation-foundations/. Claude Code auto-discovers it on next session.
Skills live at ~/.claude/skills/bio-phasing-imputation-foundations/SKILL.md on macOS/Linux, or %USERPROFILE%\.claude\skills\bio-phasing-imputation-foundations\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 Phasing Imputation Foundations Claude Code skill?
Install via the ClaudSkills desktop app (one click) or copy
SKILL.md from the source repository to
~/.claude/skills/bio-phasing-imputation-foundations/SKILL.md and restart Claude Code. Both flows are detailed at
claudskills.com/install/.
What does the Bio Phasing Imputation Foundations skill do?
Frames the phasing/imputation pipeline before any tool runs: phasing and imputation are one Li-Stephens copying HMM (recombination is the transition, mutation the emission, the genetic map and Ne set the rates), imputation's honest output is a dosage with a self-estimated quality (INFO/R2/DR2) not a hard genotype, and the stages are ordered and each fails silently (QC, align build and strand to the panel, phase, impute per chromosome, filter by INFO/R2 plus a MAF floor, carry dosages to GWAS). Covers the strategy fork (array vs low-coverage WGS plus genotype-likelihood imputation), why the panel ancestry is the prior, and why a flipped strand or build mismatch destroys accuracy without an error. Use when deciding a genotyping strategy, sequencing the pipeline, choosing array vs low-coverage WGS, or diagnosing silently-wrong imputation. Mechanics route to reference-panels, haplotype-phasing, genotype-imputation, imputation-qc; read-backed phasing is long-read-sequencing/haplotype-phasing.
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 Phasing Imputation Foundations skill?
Use Bio Phasing Imputation Foundations 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 Phasing Imputation Foundations" 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 Phasing Imputation Foundations 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 Phasing Imputation Foundations 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 Phasing Imputation Foundations [Claude Code skill]. ClaudSkills. https://claudskills.com/skills/bio-phasing-imputation-foundations/
BibTeX
@misc{bio-phasing-imputation-foundations-2026,
author = {bg-szy},
title = {Bio Phasing Imputation Foundations [Claude Code skill]},
year = {2026},
publisher = {ClaudSkills},
url = {https://claudskills.com/skills/bio-phasing-imputation-foundations/}
}Embed this skill
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Security scan
Grade A · scanned 2026-09-28 — 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-phasing-imputation-foundations/#security)
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