Automate end-to-end NGS analysis workflows for ChIP-seq, RNA-seq, and ATAC-seq.
npx skills add https://github.com/mkurman/tamux --skill deeptools-mkurman
Please help me install this Agent Skill. Skill: deeptools Source: https://github.com/mkurman/tamux/tree/main/skills/scientific-skills/deeptools Command: npx skills add https://github.com/mkurman/tamux --skill deeptools-mkurman
Streamlines end-to-end NGS data analysis workflows by providing scalable, repeatable pipelines for QC, normalization, and visualization across ChIP-seq, RNA-seq, and ATAC-seq.
Install the required dependencies, then run the workflow generator to scaffold a starter pipeline tailored to your data.
High-intent search queries and answers about installing and using this skill.
Automating NGS data analysis workflows involves using template-driven generators to scaffold ready-to-run pipelines. This streamlines QC, normalization, and visualization across ChIP-seq, RNA-seq, and ATAC-seq, ensuring reproducible multi-sample processing.
Converting BAM to bigWig requires applying normalization methods like RPGC or CPM with configurable genome sizes. This standardizes coverage tracks for ChIP-seq, RNA-seq, and ATAC-seq, enabling accurate multi-sample visualizations.
Generating correlation heatmaps and PCA plots for NGS quality control requires comprehensive QC assessment across multiple samples. This includes fragment-size analysis and coverage evaluation to validate data reproducibility before downstream analysis.
Applying Tn5 correction for ATAC-seq uses ready-to-run workflow templates that incorporate configurable genome sizes. This ensures accurate coverage track generation and normalization tailored to ATAC-seq specific processing requirements.
Input validation and modular components like scripts, references, and assets are integrated directly into the NGS workflow generator. This design ensures scalable project setup and reproducible genomic analyses across multiple sequencing assays.
galeepAutomate NGS data processing and analysis with the deepTools suite.
zhouboyu-xrealAccesses bioinformatics tools and reference material for genomic and biological data analysis.
LeonChaoXConvert BAM alignment files into normalized genome coverage tracks and perform QC.
CHENyiru3Integrate multi-modal single-cell RNA and protein data with Seurat v5 WNN.
