Convert BAM files to normalized bigWig tracks and generate quality control visualizations.
npx skills add https://github.com/yf8578/clawomics --skill deeptools-yf8578
Please help me install this Agent Skill. Skill: deeptools Source: https://github.com/yf8578/clawomics/tree/main/skills/deeptools Command: npx skills add https://github.com/yf8578/clawomics --skill deeptools-yf8578
This Skill provides a comprehensive suite of command-line tools for analyzing high-throughput sequencing data, enabling quality control, normalization, comparison, and visualization of complex genomic datasets.
Use the deeptools skill to generate a quality control heatmap for ChIP-seq data.
High-intent search queries and answers about installing and using this skill.
This Skill provides scripts to convert BAM files to bigWig for ChIP-seq visualization. It generates normalized coverage tracks from BAM alignments, outputting bigWig or bedGraph formats for downstream signal visualization.
Quality control on RNA-seq data is performed using correlation, PCA, and fingerprint assessments. This Skill executes these quality control checks to evaluate high-throughput sequencing sample reliability and identify outliers.
Generate heatmaps of signal enrichment around genomic features using this Skill's visualization scripts. It creates publication-quality heatmaps and profile plots from high-throughput sequencing data to visualize signal distribution patterns.
Yes, you can use this Skill for ATAC-seq workflows and normalization. It explicitly supports ATAC-seq processing, providing specific scripts and reference documentation for normalization and effective genome size calculations.
Yes, this Skill supports sample comparisons for high-throughput sequencing data. It provides command-line tools that enable direct sample comparisons alongside quality control assessments and normalization features.
TianGzlabAlign FASTQ reads to reference genomes with BWA-MEM, Bowtie2, and Minimap2.
ammawlaGenerate publication-quality visualizations of ENCODE genomic data with deepTools, IGV, UCSC, R, and Python.
TianGzlabPerform ATAC-seq and ChIP-seq peak calling with MACS3 and motif enrichment using Homer.
Zepeng-MuValidate ezGenomeTracks R package plotting components with external genomic datasets.
