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Use when retrieving sequences or metadata from local BLAST databases, looking up entries by identifier or taxonomy, or inspecting database contents.
用 Codex 或 Claude 帮你安装 复制这段 Prompt，粘贴到 Codex、Claude 或其他助手里，让它检查 Skill 页面并帮你完成安装。
基于 SOC 职业分类
Use when joint-genotyping one or more germline gVCFs into a cohort VCF with GATK GenotypeGVCFs.
Use when running GATK HaplotypeCaller to emit per-sample germline variant calls or gVCFs from analysis-ready BAM/CRAM inputs.
Use when splitting mixed accession-like text into one lowercase token per line in EDirect-style text pipelines.
Use when converting ACE assembly files into SAM while preserving legacy ACE-specific padded or contig-sequence behavior.
Use when pretty-printing tab-delimited output with left, center, right, or decimal-aware numeric alignment in EDirect text workflows.
Use when masking columns or coordinate ranges in multiple-sequence alignments before downstream HMMER or alignment-processing steps.
| name | blastdbcmd |
| description | Use when retrieving sequences or metadata from local BLAST databases, looking up entries by identifier or taxonomy, or inspecting database contents. |
| disable-model-invocation | true |
| user-invocable | true |
blastdbcmd/home/vimalinx/miniforge3/envs/bio/bin/blastdbcmdmakeblastdb produced what your pipeline expects.# 1) Inspect database metadata
blastdbcmd -db proteins_db -info
# 2) Retrieve one entry in FASTA format
blastdbcmd \
-db proteins_db \
-entry XP_123456.1 \
-outfmt "%f"
# 3) Retrieve many entries from a batch file
blastdbcmd \
-db proteins_db \
-entry_batch ids.txt \
-outfmt "%f" \
-out hits.fa
# 4) Export taxonomy summary
blastdbcmd -db proteins_db -tax_info
-info first to confirm the database type and metadata.-entry or -entry_batch only if the DB was built with usable sequence IDs.-outfmt deliberately; %f is the common FASTA choice for sequence export.-tax_info rather than trying to parse raw metadata blobs.-entry, -entry_batch, -info, -metadata, and -tax_info are mutually exclusive modes.-entry all can dump an entire database, which is often much larger than expected.-parse_seqids.