Salmon Quantifier Skill

SkillDev tools

Salmon pseudo-alignment skill for fast and accurate transcript quantification

Use Salmon Quantifier Skill in Claude, ChatGPT or Ahel Desktop

Free. Sign in, add Salmon Quantifier Skill and connect your AI. About a minute.

Claude ChatGPT Ahel Desktop

Also: Claude Code · Cursor · Codex

Then ask your AI: use the Salmon Quantifier Skill

Details

Instructions available. Your AI can read the instructions. Execution depends on the setup they require.

Account requirements not reviewed. Check the skill instructions before use; Ahel provides instructions and does not run this skill.

No other account needed.

Add Ahel to your AI once: Claude, ChatGPT, Cursor, Claude Code or Codex. Then ask it to use this.

Salmon Quantifier SkillStart free

What this skill tells your AI

The instructions your AI receives, as published by a5c-ai/babysitter in library/specializations/domains/science/bioinformatics/skills/salmon-quantifier/SKILL.md and read by Ahel’s review.

Purpose

Enable Salmon pseudo-alignment for fast and accurate transcript quantification.

Capabilities

Selective alignment mode
GC bias correction
Mapping rate assessment
Bootstrap uncertainty estimation
Multi-mapping resolution
Decoy-aware indexing

Usage Guidelines

Build decoy-aware indices for accuracy
Enable GC bias correction
Use selective alignment for improved accuracy
Generate bootstraps for uncertainty estimation
Validate mapping rates against expectations
Document index and parameter versions

Dependencies

Salmon
kallisto
RSEM

Process Integration

RNA-seq Differential Expression Analysis (rnaseq-differential-expression)
Single-Cell RNA-seq Analysis (scrnaseq-analysis)

Signals

GitHub stars: 2k
Forks: 113
Last commit: Sep 2026

Advanced

Item type: skill
Key: salmon-quantifier
Source: github.com/a5c-ai/babysitter

github.com/a5c-ai/babysitter