Ready to supercharge your AI agents?

Install any skill in seconds. Free to start, no credit card required.

DnaSP · clawbio | DecimalAI

scienceby clawbio

DnaSP

clawbio/dnasp

Source clawbio/clawbio ↗License NOASSERTION

Full reimplementation of DnaSP 6 for population genetics analysis of aligned DNA sequences. Covers nucleotide diversity, haplotype statistics, neutrality tests (Tajima's D, Fu & Li's D*/F*, R2), linkage disequilibrium (D, D', R², ZnS, Za, ZZ), minimum recombination (Rm), mismatch distribution, InDel polymorphism, between-population divergence (Dxy, Da, fixed/shared sites), outgroup-based Fu & Li D/F tests (fuliout), the HKA multi-locus neutrality test (hka), the McDonald-Kreitman test (mk), Ka/K

SkillScore83Maintained

Automatic

Research pack

Last verified 9/19/2026

What it changes

Passed 17 of 20 test cases with the skill, and 3 of 20 without it.

Without skill17%

With skill83%

Checks it passed that the model alone missed

Declines to perform statistical haplotype phasing.
Notes that unphased heterozygotes remain unresolved.
Instructs choosing a fresh output directory for a new run.

and 18 more in the full report

16 fixed3 passed either way3 still failing1 broke

Pass-rate lift: +65 pp
Tokens: +98%
Agent turns: 0%
Response time: -37%

Model gemini-3.6-flashMeasured 9/19/2026v219 of 23 cases passed with skill · 20 comparable

Tokens, turns and time describe resource use, not a dollar price.

Use this skill

Save it into your project's skills folder. Claude Code picks it up in its next session.

curl -fsSL --create-dirs -o .claude/skills/clawbio-dnasp/SKILL.md https://app.decimal.ai/s/clawbio-dnasp/SKILL.md

Want it pinned and updatable? pip install "decimalai>=0.15", then decimalai skills add clawbio-dnasp, and start Claude Code with claude --plugin-dir "$(git rev-parse --show-toplevel)/.agents"

1 · One-time — install the CLI (docs ↗)

pip install "decimalai>=0.15"

2 · Get the skill — writes .agents/skills/clawbio-dnasp/ and pins it in .decimal/skills.lock

decimalai skills add clawbio-dnasp

No CLI? Get the same file — curl · raw file

curl -fsSL --create-dirs -o .claude/skills/clawbio-dnasp/SKILL.md https://app.decimal.ai/s/clawbio-dnasp/SKILL.md

Raw file: /s/clawbio-dnasp/SKILL.md ↗ · machine-readable summary at /s/clawbio-dnasp.json ↗

Safety checks: 3 of 3 passed

Code scan CleanIntent PassedContent Clean

See it in action

One of 16 test cases the skill fixed. Same model, same prompt, with and without the skill.

1 of 16

Prompt

Which InDel polymorphism model is implemented for analyzing deletion/insertion variation in sequence alignments?

What was checked, without and with the skill
Checked	Without skill	With skill
Identifies the InDel analysis as DnaSP Model 1 diallelic diversity.	Missed	Passed

case-20 · gemini-3.6-flash · 9/19/2026 · answers are capped and redacted

What's inside

The instructions your model reads when the skill loads.

SKILL.md261 linessingle file

DnaSP

Trigger

Fire when a user requests population-genetic analysis of aligned DNA, a supported VCF, or a DnaSP-compatible statistic listed below. Do NOT fire for sequence alignment, read mapping, haplotype phasing, clinical advice or unsupported coalescent significance tests.

Scope

Analyse genetic variation in supplied alignments using 16 selected DnaSP methods. This is not a complete replacement for the DnaSP GUI or all its analysis modes. Read the statistical reference for definitions, exclusions, source conventions, file formats, examples and release validation evidence.

Core Capabilities

Polymorphism: S, Eta, haplotypes, Hd, VarHd, pi, k, theta-W, G+C, Tajima's D, Fu and Li D*/F*, Ramos-Onsins and Rozas R2.
LD: D, D', R2, ZnS, Za, ZZ and original-column pair labels; recombination Rm.
Mismatch distribution with unbiased variance over unordered pairs and Sokal & Rohlf corrected CV; Harpending (1994) raggedness; Model 1 diallelic InDel diversity.
Divergence and Hudson Fst between populations; outgroup Fu and Li D/F.
Two-locus HKA, McDonald-Kreitman, Nei-Gojobori Ka/Ks, Fu's Fs and SFS.
Ts/Tv, codon counts/RSCU including stops, named per-sequence ENC and its synonymous-codon-weighted summary.
Sliding windows mirror DnaSP's Gaps in Sliding Window = considered mode: starts advance from 1 by the step, capped at alignment length; ends are capped there too, and the first window reaching the end terminates the loop. Empty windows are retained. The not-considered mode is not implemented.
Window midpoints are the alignment position of the ceil(net/2)-th gap-free column, or the window start if none exists; exported in TSV, JSON and report and used for the plot. VCF windows use retained SNP indices, including the final partial window.
Raw per-site Fay-Wu H and theta-L minus theta-W; normalised Hn/ZE are absent.

Fu and Li D*/F* and outgroup D/F mirror Data > Segregating Sites/Mutations = Segregating sites, using DnaSP's v5-style panels. The rp49 Eta-setting D*/F* figures can be reproduced by substituting eta for S, but this is not a general

Track record

Benchmark

17 / 20

test cases passed, vs 3 / 20 without

Adoption

Users: 0
Times used: 0

Safety and source details

SkillSafety

✓ 3 of 3 passed

Code scan15 of 15 checks clean

0 critical · 0 warning · 0 info — scanner v5 — 9/17/2026

View 15 scanner checks

live_secretremote_code_executionreverse_shelldata_exfiltrationssrf_metadataagent_snoopinganti_refusaldestructive_commandsobfuscated_unicodeunicode_homoglyphopaque_blobsuspicious_urltool_overreachtrigger_abuseprompt_injection_phrasing

IntentSafe

LLM judge · does the skill do what it claims

ContentClean

LLM judge · policy & harmful-content review

Source

Imported

clawbio / clawbio

skills/dnasp/SKILL.md

View on GitHub ↗

License MITImported 9/17/2026Version v2

More skills from the same source and nearby in the registry, with their headline benchmark lift.

Ready to supercharge your AI agents?

See it in action

What's inside

DnaSP

Trigger

Scope

Core Capabilities

Track record

Benchmark

Adoption

SkillSafety

Source

Related skills