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1. Cut_And_Run_Analysis_SnakeMake Cut_And_Run_Analysis_SnakeMake Public

   Step-by-step instructions and Snakemake pipeline for processing Cut&Run data

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2. RepliTimer RepliTimer Public

   Step-by-step instructions and Snakemake pipeline for processing Replication Timing Data

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3. PeakCoverageAnalyzer PeakCoverageAnalyzer Public

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4. ReplicatePeakAnalyzer ReplicatePeakAnalyzer Public

   Tool for analyzing peaks from ChipSeq or Cut&Run Experiment

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5. ReplisomeTracer ReplisomeTracer Public

   This repository contains a Snakemake-based pipeline and stand-alone scripts for analyzing DNA replication using BrdU and EdU detection in nanopore sequencing reads.

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6. QuantSeqPipeline QuantSeqPipeline Public

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