bio-alignment-msa-statistics SKILL.md skillA
bio-alignment-msa-statistics from fridrichmethod/awesome-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add fridrichmethod/awesome-skills/bio-alignment-msa-statistics@git:20260517.81511a7Pins git:20260517.81511a7 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- fridrichmethod/awesome-skills
- Path
skills/bio-alignment-msa-statistics/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260517.81511a7, committed May 17, 2026
- Size
- 12,990 bytes
- Repository stars
- 15
- License
- a license file GitHub does not identify
Calculate alignment statistics including sequence identity, conservation scores, substitution matrices, and similarity metrics. Use when comparing alignment quality, measuring sequence divergence, and analyzing evolutionary patterns.
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+, numpy 1.26+ 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. # MSA Statistics Calculate sequence identity, conservation scores, substitution counts, and other alignment metrics. ## Required Import **Goal:** Load modules for alignment I/O, substitution scoring, and statistical calculations. **Approach:** Import AlignIO for reading alignments, Counter for column analysis, numpy for matrix operations, and math for entropy calculations. ```python from Bio import AlignIO from Bio.Align import substitution_matrices from collections import Counter import numpy as np import math ``` ## Pairwise Identity **"Calculate percent identity"** → Compute the fraction of identical aligned residues between sequence pairs. **Goal:** Measure sequence similarity as percent identity for individual pairs or across all sequences in an alignment. …
Read the whole file at its exact version.
How to install
mdr add fridrichmethod/awesome-skills/bio-alignment-msa-statistics@sha256:f0e4f4f2f5112d84The line at the top of this page pins the label git:20260517.81511a7, 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_cjaunis6bbtuv4pk)
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Versions
The registry has recorded 1 version of this file, committed on May 17, 2026.
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (12990 bytes)
- pass: No zero-width or bidi control characters
- pass: No instruction hidden inside an HTML comment
- pass: No link to an exfiltration or paste host
- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
- pass: No prompt-injection phrasing
- pass: No curl or wget piped into a shell
- pass: No recursive delete of root, home or parent
- pass: No instruction to read or print local credentials
- pass: No base64 blob over 200 characters
- pass: No link to a raw IP address
- pass: No script tag
Source
fridrichmethod/awesome-skills · 15 stars · license a license file GitHub does not identify · pushed 2026-11-02 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_cjaunis6bbtuv4pk GET https://markdownregistry.com/api/v1/resolve?ref=fridrichmethod/awesome-skills/bio-alignment-msa-statistics GET https://markdownregistry.com/api/v1/blob/f0e4f4f2f5112d84cd8ac206f189e1e71a9fa56e02ec7652c093f85e1af08ff1
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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