القائمة
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.
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 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 select, filter, deduplicate, and document NCBI/GenBank/reference viral genomes before alignment, primer design, PhyloGuide, or tNGS panel design.
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 | literature-taxonomy-curation |
| description | 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 this skill before prepare-phylo or production primer design when group names affect the result. Do not infer genotype/subtype from sequence names alone.
species, optional target_group, references, and groups.python agentskill/scripts/curate_references.py validate-taxonomy \
--taxonomy-json taxonomy.json \
--output taxonomy_report.json
Optional PubMed search helper:
python agentskill/scripts/curate_references.py search-literature \
--species "Target virus" \
--extra-query "complete genome" \
--max-records 20 \
--output literature_candidates.json
The downstream agent should receive:
taxonomy.json: curated groups and references.taxonomy_report.json: validation status, warnings, and errors.If the species is missing or ambiguous, ask for clarification before assigning groups.