bio-alignment-pairwise SKILL.md skillA
bio-alignment-pairwise from pku-yuangroup/openai4s is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add pku-yuangroup/openai4s/bio-alignment-pairwise@git:20260821.2d1b678Pins git:20260821.2d1b678 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- pku-yuangroup/openai4s
- Path
skills/bioskills/bio-alignment-pairwise-alignment/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260821.2d1b678, committed Aug 21, 2026
- Size
- 22,470 bytes
- Repository stars
- 662
- License
- MIT
Perform pairwise sequence alignment using Biopython Bio.Align.PairwiseAligner. Use when comparing two sequences, finding optimal alignments, scoring similarity, and identifying local or global matches between DNA, RNA, or protein sequences.
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
## Version Compatibility Reference examples tested with: BioPython 1.83+ Before using code patterns, verify installed versions match. If versions differ: - Python: `pip show <package>` then `help(module.function)` to check signatures If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying. # Pairwise Sequence Alignment **"Align two sequences"** -> Compute an optimal alignment between a pair of sequences using dynamic programming. - Python: `PairwiseAligner()` (BioPython Bio.Align) - CLI: `needle` (global) or `water` (local) from EMBOSS - R: `pairwiseAlignment()` (Biostrings) Align two sequences using dynamic programming algorithms (Needleman-Wunsch for global, Smith-Waterman for local). ## Required Import **Goal:** Load modules needed for pairwise alignment operations. **Approach:** Import the PairwiseAligner class along with sequence and I/O utilities from Biopython. ```python from Bio.Align import PairwiseAligner from Bio.Seq import Seq from Bio import SeqIO ``` ## Pairwise Library Selection …
Read the whole file at its exact version.
How to install
mdr add pku-yuangroup/openai4s/bio-alignment-pairwise@sha256:84bcd1577bf10987The line at the top of this page pins the label git:20260821.2d1b678, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_ijnrwto6bg6sliyi)
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Versions
The registry has recorded 1 version of this file, committed on Aug 21, 2026.
Audit of the latest version
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Source
pku-yuangroup/openai4s · 662 stars · license MIT · pushed 2026-11-03 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_ijnrwto6bg6sliyi GET https://markdownregistry.com/api/v1/resolve?ref=pku-yuangroup/openai4s/bio-alignment-pairwise GET https://markdownregistry.com/api/v1/blob/84bcd1577bf10987f20efe2f985607c19aff97e7aebda9f19cf5ef9a06b4bd18
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.
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