Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
All-in-one analysis pipeline
Sanger Cellular Genetics single-cell ATAC-seq pipeline.
Pipeline codes for analyzing various genomics datasets based on MACS3
Pipeline for processing epigenomic NGS data.
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.
This is an automated workflow pipeline for analyzing bulk ATAC-seq data, implemented primarily in bash scripts, and wrapped in a NextFlow workflow.
Instructions on how to perform chromatin accessibility data pre-processing and analyses (focusing on bulk ATAC-seq)
Workflow Template
This repository to dedicated to notes, scripts, and general miscellaneous items I take during my PhD thesis in computational genetics, gene regulatory evolution
ATAC-Seq analysis. (Ali T. Abdallah)
CCBR pipeline for preliminary QC and peak calling from ATACseq datasets 🌲
A comprehensive source for Stathopoulos lab code generated and used in data analysis.
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