Snakemake pipeline for analysis and normalization of ATAC-seq data starting from fastq.gz files.
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Updated
May 28, 2024 - Python
Snakemake pipeline for analysis and normalization of ATAC-seq data starting from fastq.gz files.
Comprehensive analysis pipeline for ATAC-seq data including QC, alignment, peak calling, annotation, motif analysis, and gene enrichment. Delivers key insights and reproducible results for chromatin accessibility studies.
CCBR pipeline for preliminary QC and peak calling from ATACseq datasets
Workflow Template
Pipeline codes for analyzing various genomics datasets based on MACS3
Sanger Cellular Genetics single-cell ATAC-seq pipeline.
Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
ATAC-Seq analysis. (Ali T. Abdallah)
A comprehensive source for Stathopoulos lab code generated and used in data analysis.
Pipeline for processing epigenomic NGS data.
All-in-one analysis pipeline
Instructions on how to perform chromatin accessibility data pre-processing and analyses (focusing on bulk ATAC-seq)
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