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Search ATAC-seq , found 3 results

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NGS Data Visualization

K-Dense-AI/claude-scientific-skills

deepTools is a Python command-line suite for NGS workflows, converting BAM files into normalized coverage, running QC (fingerprint, correlation, PCA), comparing samples, and rendering heatmaps or profiles for ChIP-seq, RNA-seq, and ATAC-seq analyses.

Genomic Interval Embeddings

K-Dense-AI/claude-scientific-skills

Geniml builds machine learning workflows around BED and scATAC datasets to learn embeddings for regions, metadata, and cells, enabling similarity searches, clustering, consensus peaks, and downstream analysis of genomic intervals.

Jaspar TFBS Toolkit

jaspar-database

K-Dense-AI/claude-scientific-skills

Query the JASPAR REST API and Python helpers to retrieve TF binding profiles, convert PFMs to PWMs, and scan DNA sequences for high-confidence motifs, enabling regulatory variant interpretation, ChIP/ATAC analysis, and TF network construction.

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