القائمة
Use when an agent must select, filter, deduplicate, and document NCBI/GenBank/reference viral genomes before alignment, primer design, PhyloGuide, or tNGS panel design.
التثبيت باستخدام Codex أو Claude انسخ هذا Prompt والصقه في Codex أو Claude أو مساعد آخر ليراجع صفحة Skill ويثبّتها لك.
استنادا إلى تصنيف SOC المهني
Use when an agent needs to call the VirusPrimerPro Agent API instead of the GUI, or prepare viral genome inputs for it: request/use API keys, download viral genomes from NCBI, install/run MAFFT, check and repair abnormal sequences, prepare phylogenetic trees/annotations, upload aligned FASTA/tree/GenBank files, poll runs, and fetch artifacts.
Use when an agent needs a stricter or publication-grade phylogeny workflow for PhyloGuide, including tree/MSA validation, FastTree/IQ-TREE planning, and external-tree checks.
Use when an agent must define viral genotype, subtype, clade, lineage, target/background groups, or PhyloGuide groups from cited literature before primer or tNGS panel design.
Use when an agent must split tNGS or multiplex primer pairs into pools while minimizing primer-primer interaction risk and reporting pool overflows.
Use when an agent must evaluate primer candidates for wet-lab constraints such as length, GC, Tm, degeneracy, self-complementarity, pair complementarity, and amplicon size.
Use when an agent must batch-submit, poll, summarize, retry, or compare long-running VirusPrimerPro Agent API jobs without holding a long HTTP connection open.
| name | reference-dataset-curation |
| description | Use when an agent must select, filter, deduplicate, and document NCBI/GenBank/reference viral genomes before alignment, primer design, PhyloGuide, or tNGS panel design. |
Use this skill after taxonomy curation and before MAFFT or Agent API submission. The goal is a reproducible accession manifest, not just a broad NCBI query.
python agentskill/scripts/curate_references.py curate-accessions \
--metadata-csv accession_metadata.csv \
--taxonomy-json taxonomy.json \
--species "Target virus" \
--host "target host" \
--min-length 1000 \
--max-n-fraction 0.05 \
--require-complete \
--dedupe-by-sequence \
--output accession_manifest.json \
--accepted-csv accession_accepted.csv \
--rejected-csv accession_rejected.csv
Proceed only when:
accession_manifest.json;