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Use when you need to identify, view, or copy HTS-format files (BAM, CRAM, VCF, BCF). Use for inspecting file headers or viewing textual representations of binary HTS files.
默认使用会先检查来源的 Prompt；你也可以切换为直接命令，或下载本地副本。
决定是否安装前，请先阅读 SKILL.md，以及 SkillsMP 当前展示的配套文件。
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。
直接命令不会经过审查 Prompt；运行前请先检查来源。
npx skills add https://github.com/vimalinx/bio-agent --skill htsfile命令会保持在同一行。复制前请横向滚动并检查完整内容。
想先保存到本地？可下载 SkillsMP 当前能够提供的文件。
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.
基于 SOC 职业分类
正在显示 SKILL.md
| name | htsfile |
| description | Use when you need to identify, view, or copy HTS-format files (BAM, CRAM, VCF, BCF). Use for inspecting file headers or viewing textual representations of binary HTS files. |
| disable-model-invocation | true |
| user-invocable | true |
htsfile [OPTIONS] FILE.../home/vimalinx/miniforge3/envs/bio/bin/htsfilereferences/help.md for complete options and usage details# 1) Identify file type
htsfile sample.bam
# 2) Show only the header
htsfile -c -h sample.bam
# 3) View textual representation
htsfile -c sample.bcf
# 4) Copy exact contents
htsfile --copy sample.bam sample.copy.bam
htsfile first when file-type confusion is blocking the workflow.samtools or bcftools once the file type is confirmed.--copy is a dedicated mode and requires one source plus one destination.-h and -H mean opposite things in view mode.htsfile is for inspection and diagnosis, not rich editing or filtering.--copy subcommand requires exactly one source FILE and one DESTFILE-h (header-only) and -H (no-header) have opposite effects in view mode-v; use for additional diagnostics and warnings