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alignment

Bio.Align provides tools for pairwise sequence alignment using various algorithms, while Bio.AlignIO handles reading and writing multiple sequence alignment files in various formats.

  • Skills
  • Scientific
  • 1

What it does and how to use it

A skill that teaches Claude Code to do scientific tasks well. It is packaged knowledge the model uses whenever it is relevant.

  1. Install the skill (command above).
  2. In Claude Code, describe what you need - the skill turns on by itself when the context fits.
  3. No commands to memorize: you talk in plain language and the skill does the rest.

Install (Claude Code)

mkdir -p .claude/skills/alignment && curl -fsSL https://doutorai.pt/data/lib/skills__alignment.md -o .claude/skills/alignment/SKILL.md

Paste this command into the terminal, in your project folder, and the component installs automatically.

Content

# Sequence Alignments with Bio.Align and Bio.AlignIO

## Overview

Bio.Align provides tools for pairwise sequence alignment using various algorithms, while Bio.AlignIO handles reading and writing multiple sequence alignment files in various formats.

## Pairwise Alignment with Bio.Align

### The PairwiseAligner Class

The `PairwiseAligner` class performs pairwise sequence alignments using Needleman-Wunsch (global), Smith-Waterman (local), Gotoh (three-state), and Waterman-Smith-Beyer algorithms. The appropriate algorithm is automatically selected based on gap score parameters.

### Creating an

- 🔒 Full content on the Pro plan (€7.99/month) -

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