跳到正文
cccskills
免费在 GitHub 公开

bioskills

Installs 425 bioinformatics skills covering sequence analysis, RNA-seq, single-cell, variant calling, metagenomics, structural biology, and 56 more categories. Use when setting up bioinformatics capabilities or when a bioinformatics task requires specialized skills not yet installed.

中文简介正在准备中。当前显示原文说明。

查看安装方法

包含的文件(2)

  • SKILL.md3.1 KB
  • scripts/install-bioskills.sh4.1 KB

SKILL.md(原文)

安装前可以查看交给 AI 代理的指令内容。

bioSkills Installer

Meta-skill that installs the full bioSkills collection (425 skills across 62 categories) for bioinformatics analysis.

Installation

Run the bundled install script to download and install all bioSkills:

bash scripts/install-bioskills.sh

Or install only specific categories:

bash scripts/install-bioskills.sh --categories "single-cell,variant-calling,differential-expression"

What Gets Installed

425 skills across 62 categories covering:

  • Sequence & Alignment (40): sequence-io, sequence-manipulation, alignment, alignment-files, database-access
  • Read Processing (11): read-qc, read-alignment
  • RNA-seq & Expression (14): differential-expression, rna-quantification, expression-matrix
  • Single-Cell & Spatial (25): single-cell, spatial-transcriptomics
  • Variant Analysis (21): variant-calling, copy-number, phasing-imputation
  • Epigenomics (25): chip-seq, atac-seq, methylation-analysis, hi-c-analysis
  • Metagenomics & Microbiome (13): metagenomics, microbiome
  • Genomics & Assembly (29): genome-assembly, genome-annotation, genome-intervals, genome-engineering, primer-design
  • Regulatory & Causal (13): gene-regulatory-networks, causal-genomics, rna-structure
  • Temporal & Ecological (11): temporal-genomics, ecological-genomics
  • Immunology & Clinical (25): immunoinformatics, clinical-databases, tcr-bcr-analysis, epidemiological-genomics
  • Specialized Omics (36): proteomics, metabolomics, alternative-splicing, chemoinformatics, liquid-biopsy
  • RNA Biology (20): small-rna-seq, epitranscriptomics, clip-seq, ribo-seq
  • Phylogenetics & Evolution (16): phylogenetics, population-genetics, comparative-genomics
  • Structural & Systems (11): structural-biology, systems-biology
  • Screens & Cytometry (22): crispr-screens, flow-cytometry, imaging-mass-cytometry
  • Pathway & Integration (14): pathway-analysis, multi-omics-integration, restriction-analysis
  • Infrastructure (39): data-visualization, machine-learning, workflow-management, reporting, experimental-design, long-read-sequencing
  • Workflows (40): end-to-end pipelines (FASTQ to results)

After Installation

Once installed, skills are automatically triggered based on the task at hand. Example requests:

  • "I have RNA-seq counts from treated vs control samples - find the differentially expressed genes"
  • "Call variants from this whole genome sequencing BAM file"
  • "Cluster my single-cell RNA-seq data and find marker genes"
  • "Predict the structure of this protein sequence"
  • "Run a metagenomics classification on these shotgun reads"

Source

GitHub: https://github.com/GPTomics/bioSkills

评价

还没有评价。欢迎分享你的使用感受。

评论

无需登录即可发表。欢迎分享使用感受、提问,或说明在哪些环境下无法运行。

还没有评论。来写第一条吧。

提交后会立即公开。请勿填写邮箱、电话等个人信息。URL 最多 2 个。

0 / 1000 字

此表单受 reCAPTCHA 保护,适用 Google 的隐私权政策和服务条款。

同一仓库的技能

生成图文并茂的分析报告/实验报告/质检报告(固定模版)。当用户要求"生成报告/总结报告/实验报告/质检报告/QC报告",或分析流程收尾需要交付报告时使用。报告必须基于真实分析输出,包含固定章节结构、关键指标表格和真实结果图。

中文简介正在准备中。当前显示原文说明。

peacezha/TRACE32026年10月20日 更新

Predicts ADMET properties using ADMETlab 3.0 (119 endpoints with uncertainty), ADMET-AI, DeepChem MolNet, and chemprop D-MPNN with explicit handling of OECD QSAR principles, applicability domain assessment, calibration, hERG/CYP/AMES gold-standard endpoints, and PAINS / Lipinski / Ro5 / Veber / BBB druglikeness filters. Use when filtering compounds for drug-likeness, prioritizing leads by predicted safety, or building an in-house ADMET QSAR model.

中文简介正在准备中。当前显示原文说明。

peacezha/TRACE32026年10月20日 更新

Trim PCR primers from aligned reads in amplicon-panel BAMs using samtools ampliconclip. Use when processing SARS-CoV-2 ARTIC, hereditary cancer panels, ctDNA hot-spot panels, or any amplicon assay where primer-derived bases would falsely confirm reference at primer footprints.

中文简介正在准备中。当前显示原文说明。

peacezha/TRACE32026年10月20日 更新

Filter alignments by flags, mapping quality, and regions using samtools view and pysam. Use when extracting specific reads, removing low-quality alignments, or subsetting to target regions.

中文简介正在准备中。当前显示原文说明。

peacezha/TRACE32026年10月20日 更新

Create and use BAI/CSI indices for BAM/CRAM files using samtools and pysam. Use when enabling random access to alignment files or fetching specific genomic regions.

中文简介正在准备中。当前显示原文说明。

peacezha/TRACE32026年10月20日 更新

Read, write, and convert multiple sequence alignment files using Biopython Bio.AlignIO. Supports Clustal, PHYLIP, Stockholm, FASTA, Nexus, and other alignment formats for phylogenetics and conservation analysis. Use when reading, writing, or converting alignment file formats.

中文简介正在准备中。当前显示原文说明。

peacezha/TRACE32026年10月20日 更新

查看 peacezha 的全部技能

报告此技能的问题